Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold61
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1997344
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.30
Warning! 204170 characters in sequence are not A, C, G, or T
File 6 of 6
Found at i:1746679 original size:33 final size:33
Alignment explanation
Indices: 1746610--1746759 Score: 123
Period size: 33 Copynumber: 4.5 Consensus size: 33
1746600 TATAAAAGGG
*
1746610 GGTTGCTAAGTGCTGATT-CCC--C-CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1746637 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
1746670 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-TG--GT
* *
1746711 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
*
1746744 GGCTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
1746760 ATCCATCGAT
Statistics
Matches: 99, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
27 18 0.18
28 3 0.03
30 1 0.01
31 2 0.02
32 2 0.02
33 35 0.35
34 3 0.03
35 3 0.03
36 2 0.02
37 2 0.02
38 2 0.02
39 3 0.03
40 3 0.03
41 20 0.20
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:1748482 original size:27 final size:27
Alignment explanation
Indices: 1748444--1748556 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 27
1748434 TTTTGTGAGC
*
1748444 CTTTATGGCAAACTCTAAAAGAATAGT
1 CTTTGTGGCAAACTCTAAAAGAATAGT
**
1748471 CTTTGTGGCAAACTCTAAAAGAATAAC
1 CTTTGTGGCAAACTCTAAAAGAATAGT
* * *
1748498 CTTTGTGGCGAACTCTGAATGAATAGT
1 CTTTGTGGCAAACTCTAAAAGAATAGT
* * * * *
1748525 ATTTGTGGAAAACTTTGAAAGAATAGA
1 CTTTGTGGCAAACTCTAAAAGAATAGT
1748552 CTTTG
1 CTTTG
1748557 AGACGAACTC
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (27 bp):
CTTTGTGGCAAACTCTAAAAGAATAGT
Found at i:1748568 original size:54 final size:54
Alignment explanation
Indices: 1748454--1748572 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
1748444 CTTTATGGCA
* * * * * *
1748454 AACTCTAAAAGAATAGTCTTTGTGGCAAACTCTAAAAGAATAACCTTTGTGGCG
1 AACTCTGAATGAATAGTATTTGTGGAAAACTCTAAAAGAATAACCTTTGAGACG
* *
1748508 AACTCTGAATGAATAGTATTTGTGGAAAACTTTGAAAGAATAGA-CTTTGAGACG
1 AACTCTGAATGAATAGTATTTGTGGAAAACTCTAAAAGAATA-ACCTTTGAGACG
1748562 AACTCTGAATG
1 AACTCTGAATG
1748573 GACTACCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 55 0.98
55 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (54 bp):
AACTCTGAATGAATAGTATTTGTGGAAAACTCTAAAAGAATAACCTTTGAGACG
Found at i:1750964 original size:13 final size:14
Alignment explanation
Indices: 1750936--1750968 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1750926 CATATTTTTT
1750936 TATGAAAATAGATA
1 TATGAAAATAGATA
*
1750950 TATGAAACT-GATA
1 TATGAAAATAGATA
1750963 TATGAA
1 TATGAA
1750969 GTGTATACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.30
Consensus pattern (14 bp):
TATGAAAATAGATA
Found at i:1754588 original size:25 final size:25
Alignment explanation
Indices: 1754552--1754616 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
1754542 CAGACACACC
*
1754552 ACAGCTCTTATGAGCTTACCGATTCT
1 ACAGCTCGTATGAGCTTACCGATT-T
*
1754578 -CAGCTCGTATGAGCTTATCGATTT
1 ACAGCTCGTATGAGCTTACCGATTT
*
1754602 ATAGCTCGTATGAGC
1 ACAGCTCGTATGAGC
1754617 ATACATGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (25 bp):
ACAGCTCGTATGAGCTTACCGATTT
Found at i:1755154 original size:114 final size:114
Alignment explanation
Indices: 1754954--1755184 Score: 462
Period size: 114 Copynumber: 2.0 Consensus size: 114
1754944 TAAGTTATGC
1754954 ATTGAAATGGTAAATGCCTAAATGAAAATATGCTTGTGATCATGAGAGGGTGGTAATGTTTAAAT
1 ATTGAAATGGTAAATGCCTAAATGAAAATATGCTTGTGATCATGAGAGGGTGGTAATGTTTAAAT
1755019 TATGTAATTCCTATTGAAATGGTTTACCATATGGTTAGTTCCAAAAAGA
66 TATGTAATTCCTATTGAAATGGTTTACCATATGGTTAGTTCCAAAAAGA
1755068 ATTGAAATGGTAAATGCCTAAATGAAAATATGCTTGTGATCATGAGAGGGTGGTAATGTTTAAAT
1 ATTGAAATGGTAAATGCCTAAATGAAAATATGCTTGTGATCATGAGAGGGTGGTAATGTTTAAAT
1755133 TATGTAATTCCTATTGAAATGGTTTACCATATGGTTAGTTCCAAAAAGA
66 TATGTAATTCCTATTGAAATGGTTTACCATATGGTTAGTTCCAAAAAGA
1755182 ATT
1 ATT
1755185 ATGTTTAAAT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 117 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.35
Consensus pattern (114 bp):
ATTGAAATGGTAAATGCCTAAATGAAAATATGCTTGTGATCATGAGAGGGTGGTAATGTTTAAAT
TATGTAATTCCTATTGAAATGGTTTACCATATGGTTAGTTCCAAAAAGA
Found at i:1756075 original size:8 final size:8
Alignment explanation
Indices: 1756059--1756088 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1756049 ATCTACATGA
*
1756059 TATGTAAT
1 TATGCAAT
1756067 TATGCAAT
1 TATGCAAT
1756075 TATGCAAT
1 TATGCAAT
1756083 TATGCA
1 TATGCA
1756089 TAGAATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (8 bp):
TATGCAAT
Found at i:1757603 original size:13 final size:13
Alignment explanation
Indices: 1757587--1757611 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1757577 TAAACTGAGC
1757587 TATTAAATATTTT
1 TATTAAATATTTT
1757600 TATTAAATATTT
1 TATTAAATATTT
1757612 ATAGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTAAATATTTT
Found at i:1778163 original size:17 final size:17
Alignment explanation
Indices: 1778141--1778174 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1778131 AATAAGTATA
*
1778141 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
1778158 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
1778175 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:1781648 original size:40 final size:40
Alignment explanation
Indices: 1781593--1781788 Score: 204
Period size: 40 Copynumber: 4.9 Consensus size: 40
1781583 ATAATATTGA
1781593 TGATTGCA-CATACGTGCCCTTATTTGTACTTCGGTACCCC
1 TGATTG-AGCATACGTGCCCTTATTTGTACTTCGGTACCCC
*
1781633 TGATTGAGCATACGTGTCCCTT-TTTGTACTTCGGTACCCT
1 TGATTGAGCATACGTG-CCCTTATTTGTACTTCGGTACCCC
* *
1781673 TGATT-ATGCATACGTGTCCTTGTTTGTACTTCGGTACCCC
1 TGATTGA-GCATACGTGCCCTTATTTGTACTTCGGTACCCC
* * * * * *
1781713 TGATTGCA-CATACGTTCCCCTACTTGAACTTTGATACCCC
1 TGATTG-AGCATACGTGCCCTTATTTGTACTTCGGTACCCC
* * *
1781753 TGATTG-GAAATACATGCCATTATTTGTACTTCGGTA
1 TGATTGAG-CATACGTGCCCTTATTTGTACTTCGGTA
1781789 GCCCAGAATG
Statistics
Matches: 128, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
39 6 0.05
40 116 0.91
41 5 0.04
42 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (40 bp):
TGATTGAGCATACGTGCCCTTATTTGTACTTCGGTACCCC
Found at i:1781814 original size:120 final size:119
Alignment explanation
Indices: 1781593--1781828 Score: 264
Period size: 120 Copynumber: 2.0 Consensus size: 119
1781583 ATAATATTGA
* * * * * * *
1781593 TGATTGCACATACGTGCCCTTATTTGTACTTCGGTACCCCTGATTGAGCATACGTGTCCCTTTTT
1 TGATTGCACATACGTGCCCCTACTTGAACTTCGATACCCCTGATTGAGAATACATGTCCATTTTT
* * *
1781658 GTACTTCGGTACCCTTGATTATGCATACGTGTCCTTGTTTGTACTTCGGTACCCC
66 GTACTTCGGTACCCTAGA-TATGCATACGTGCCCTTGTTTATACTTCGGTACCCC
* *
1781713 TGATTGCACATACGTTCCCCTACTTGAACTTTGATACCCCTGATTG-GAAATACATG-CCATTAT
1 TGATTGCACATACGTGCCCCTACTTGAACTTCGATACCCCTGATTGAG-AATACATGTCCATT-T
* *
1781776 TTGTACTTCGGTAGCCC-AGA-ATGCACTTATGTGCCCTTGTTTATACTTTGGTA
64 TTGTACTTCGGTA-CCCTAGATATGCA--TACGTGCCCTTGTTTATACTTCGGTA
1781829 ACCTTGAATC
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
118 5 0.05
119 5 0.05
120 84 0.87
121 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.37
Consensus pattern (119 bp):
TGATTGCACATACGTGCCCCTACTTGAACTTCGATACCCCTGATTGAGAATACATGTCCATTTTT
GTACTTCGGTACCCTAGATATGCATACGTGCCCTTGTTTATACTTCGGTACCCC
Found at i:1782583 original size:52 final size:52
Alignment explanation
Indices: 1782527--1782643 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
1782517 ACAGTCGTGT
*
1782527 GACACGACCGTGTAACCTTACTCAGTGAGTTACACGTGAGGACACAGGCTTG
1 GACACGACCGTGTAACCTTACGCAGTGAGTTACACGTGAGGACACAGGCTTG
*
1782579 GACACGACCGTGTAACCTTACGCAGTGAGTTACACGTGAGGACACGGGCTTG
1 GACACGACCGTGTAACCTTACGCAGTGAGTTACACGTGAGGACACAGGCTTG
*
1782631 GACACGATCGTGT
1 GACACGACCGTGT
1782644 GTCCCTTGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.21
Consensus pattern (52 bp):
GACACGACCGTGTAACCTTACGCAGTGAGTTACACGTGAGGACACAGGCTTG
Found at i:1784847 original size:2 final size:2
Alignment explanation
Indices: 1784840--1784870 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1784830 ATGTTTTTCC
1784840 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1784871 TGATTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1792491 original size:129 final size:128
Alignment explanation
Indices: 1792257--1792734 Score: 491
Period size: 132 Copynumber: 3.7 Consensus size: 128
1792247 CGAAGATACC
* * ** *
1792257 AGACCTTGCCTCCTGCAGTTGCAGTGGAGTAGGTTGATTACGGATTTTACC-CCCTGAGGTTACA
1 AGACCTTACCTCCT-CAGTTGCAGTGGAGTAGGTTAATGGCGGATTTTACCGCCCTGAAGTTACA
*
1792321 GTGGAGTACATTGAAGCCGGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTAT
65 GTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTAT
* ** *
1792385 AGACCTTACCTCTCTCGGTTGCAGTGGAGTAGGTTAATGGCAAATTTTACCGCCCTGAAGTTATA
1 AGACCTTACCTC-CTCAGTTGCAGTGGAGTAGGTTAATGGCGGATTTTACCGCCCTGAAGTTACA
* * *
1792450 GTGGAGTACATTGAAGCCAGTAATTCTACTTTCCTGAGCAGCAGTGGAATAGATTGAAGATTTT
65 GTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTAT
* * * * * *
1792514 AGATCTTACCTCC-CTAATTAGTAGTGGAGTAGATCGAAGATGGTGGATTTTA-CGTCCCTGTAA
1 AGACCTTACCTCCTC-AGTT-GCAGTGGAGTAGGT--TA-ATGGCGGATTTTACCG-CCCTG-AA
*
1792577 -TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGTAGCAGTGGAATAGATTGAAG
59 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAG
1792641 ATT-T
124 ATTAT
* * * ** * * * * **
1792645 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATGGCGGATTTTACCTCCCTGTGGT
1 -AGACCTTACCT-CCTCAGTTGCAGTGGAGTAGGTT--A-ATGGCGGATTTTACCGCCCTGAAGT
*
1792710 TACAGCGGAGTACATTGAAGCCAGT
61 TACAGTGGAGTACATTGAAGCCAGT
1792735 TATCCTATTT
Statistics
Matches: 295, Mismatches: 38, Indels: 30
0.81 0.10 0.08
Matches are distributed among these distances:
127 1 0.00
128 44 0.15
129 94 0.32
130 1 0.00
131 4 0.01
132 145 0.49
133 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (128 bp):
AGACCTTACCTCCTCAGTTGCAGTGGAGTAGGTTAATGGCGGATTTTACCGCCCTGAAGTTACAG
TGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTAT
Found at i:1792547 original size:44 final size:44
Alignment explanation
Indices: 1792489--1792704 Score: 125
Period size: 44 Copynumber: 4.9 Consensus size: 44
1792479 TTTCCTGAGC
* * *
1792489 AGCAGTGGAATAGATTGAAGATTTTAGATCTTACCTCCCTAATT
1 AGCAGTGGAGTAGATTGAAGATTGTAGATCTTACCTCCCTAAGT
* * * * * * *
1792533 AGTAGTGGAGTAGATCGAAGATGGTGGATTTTACGTCCCTGTAATT
1 AGCAGTGGAGTAGATTGAAGATTGTAGATCTTACCTCCC--TAAGT
* *** * **
1792579 A-CAGTGGAGTACATTGAAGCCAGTA-AT-TCTACTTCCCTGGGT
1 AGCAGTGGAGTAGATTGAAGATTGTAGATCT-TACCTCCCTAAGT
* * *
1792621 AGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCTAAGC
1 AGCAGTGGAGTAGATTGAAGATTGT-AGATCTTACCTCCCTAAGT
* * * * ** *
1792665 AGTAGTGGAGCAGATTAAAGATGGCGGATTTTACCTCCCT
1 AGCAGTGGAGTAGATTGAAGATTGTAGATCTTACCTCCCT
1792705 GTGGTTACAG
Statistics
Matches: 126, Mismatches: 38, Indels: 16
0.70 0.21 0.09
Matches are distributed among these distances:
42 4 0.03
43 18 0.14
44 80 0.63
45 18 0.14
46 6 0.05
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (44 bp):
AGCAGTGGAGTAGATTGAAGATTGTAGATCTTACCTCCCTAAGT
Found at i:1792611 original size:132 final size:130
Alignment explanation
Indices: 1792316--1792734 Score: 506
Period size: 132 Copynumber: 3.2 Consensus size: 130
1792306 CCCCCTGAGG
*
1792316 TTACAGTGGAGTACATTGAAGCCGGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAAG
1 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAG
* * * ** * * * **
1792380 ATTATAGACCTTACCTCTCTCGGTT-GCAGTGGAGTAGGTTA-ATGGCAAATTTTACCG-CCCTG
65 ATTTTAGATCTTACCTCCCT-AATTAGTAGTGGAGTAGATAAGATGGCGGATTTTA-CGTCCCTG
1792442 -AA
128 TAA
* * *
1792444 GTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTTCCTGAGCAGCAGTGGAATAGATTGAAG
1 -TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAG
*
1792509 ATTTTAGATCTTACCTCCCTAATTAGTAGTGGAGTAGATCGAAGATGGTGGATTTTACGTCCCTG
65 ATTTTAGATCTTACCTCCCTAATTAGTAGTGGAGTAGAT--AAGATGGCGGATTTTACGTCCCTG
1792574 TAA
128 TAA
*
1792577 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGTAGCAGTGGAATAGATTGAAGA
1 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGA
* * ** * *
1792642 TTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGATGGCGGATTTTACCTCCCTGT
66 TTTTAGATCTTACCTCCCTAATTAGTAGTGGAGTAGA-T-AAGATGGCGGATTTTACGTCCCTGT
**
1792707 GG
129 AA
*
1792709 TTACAGCGGAGTACATTGAAGCCAGT
1 TTACAGTGGAGTACATTGAAGCCAGT
1792735 TATCCTATTT
Statistics
Matches: 252, Mismatches: 30, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
128 2 0.01
129 87 0.35
130 1 0.00
131 3 0.01
132 156 0.62
133 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (130 bp):
TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGA
TTTTAGATCTTACCTCCCTAATTAGTAGTGGAGTAGATAAGATGGCGGATTTTACGTCCCTGTAA
Found at i:1793203 original size:49 final size:49
Alignment explanation
Indices: 1793056--1793203 Score: 125
Period size: 50 Copynumber: 3.0 Consensus size: 49
1793046 TTACAGATCT
* *
1793056 TACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCT
1 TACT-CCCAGGAGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCG
* * ** * * ** * * * * * *
1793106 TGCTTCCTCGACATTGTAGTTAAAAAGATTAAAGCTATAGCAGCGAATCG
1 TACTCCCAGGAGA-TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCG
*
1793156 TACTCCCAGGAGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATC
1 TACTCCCAGGAGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATC
1793204 TTGTTTCCCC
Statistics
Matches: 66, Mismatches: 31, Indels: 3
0.66 0.31 0.03
Matches are distributed among these distances:
49 30 0.45
50 36 0.55
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (49 bp):
TACTCCCAGGAGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCG
Found at i:1794821 original size:9 final size:9
Alignment explanation
Indices: 1794809--1794867 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
1794799 TTTGGTTTAA
*
1794809 TATTACCAT
1 TATTATCAT
*
1794818 TATTATTAT
1 TATTATCAT
*
1794827 TATTATTAT
1 TATTATCAT
1794836 TATTATCAT
1 TATTATCAT
*
1794845 TATTATTAT
1 TATTATCAT
*
1794854 TATTATTAT
1 TATTATCAT
1794863 TATTA
1 TATTA
1794868 GTTTTTTACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTATCAT
Found at i:1794824 original size:3 final size:3
Alignment explanation
Indices: 1794816--1794867 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
1794806 TAATATTACC
*
1794816 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1794864 ATT A
1 ATT A
1794868 GTTTTTTACT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1797065 original size:40 final size:40
Alignment explanation
Indices: 1797021--1797256 Score: 249
Period size: 40 Copynumber: 5.9 Consensus size: 40
1797011 ATAATATTGA
1797021 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
*
1797061 TGATTGCGCATACGTGTCCC-TGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTG-CCCTTGTTTGTACTTCGGTACCCC
** *
1797101 TGATTGTGCATACGTGTCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * * * * * *
1797141 TGATTGCACATACATTCCCCTGCTTGAACTTTGATACCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * * * * *
1797181 TGATTGAAAATACATGCCGTTATTTGTACTTCGGTAGCCC
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * * * * *
1797221 AGAATGCACTTATGTGCCCTTGTTTATACTTTGGTA
1 TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTA
1797257 ACCTTGAATC
Statistics
Matches: 159, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
39 2 0.01
40 154 0.97
41 3 0.02
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
Found at i:1797101 original size:20 final size:20
Alignment explanation
Indices: 1797041--1797142 Score: 68
Period size: 20 Copynumber: 5.1 Consensus size: 20
1797031 TACGTGCCCT
1797041 TGTTTGTACTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
* ** *
1797061 TGATTGCGCATACGTGT--CCC
1 TGTTTGTAC-TTCG-GTACCCC
1797081 TGTTTGTACTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
* * * *
1797101 TGATTGTGCATACGTGT--CCT
1 TGTTTGTAC-TTCG-GTACCCC
1797121 TGTTTGTACTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
1797141 TG
1 TG
1797143 ATTGCACATA
Statistics
Matches: 58, Mismatches: 16, Indels: 16
0.64 0.18 0.18
Matches are distributed among these distances:
18 4 0.07
19 6 0.10
20 38 0.66
21 6 0.10
22 4 0.07
ACGTcount: A:0.12, C:0.27, G:0.23, T:0.38
Consensus pattern (20 bp):
TGTTTGTACTTCGGTACCCC
Found at i:1798068 original size:52 final size:52
Alignment explanation
Indices: 1798006--1798118 Score: 190
Period size: 52 Copynumber: 2.2 Consensus size: 52
1797996 TCGTGTGACG
* *
1798006 CGACCGTGTAACCTTACTCAGTGAGTTACACGTGAGGACACAGGCTTGGACA
1 CGACCGTGTAACCTTACTCAGTGACTCACACGTGAGGACACAGGCTTGGACA
*
1798058 CGACCGTGTAACCTTACTCAGTGACTCACACGTGAGGACACGGGCTTGGACA
1 CGACCGTGTAACCTTACTCAGTGACTCACACGTGAGGACACAGGCTTGGACA
*
1798110 CGATCGTGT
1 CGACCGTGT
1798119 GTCCCTTGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (52 bp):
CGACCGTGTAACCTTACTCAGTGACTCACACGTGAGGACACAGGCTTGGACA
Found at i:1800359 original size:44 final size:44
Alignment explanation
Indices: 1800150--1800536 Score: 141
Period size: 44 Copynumber: 8.9 Consensus size: 44
1800140 CCTGAGGTTA
* ** * *
1800150 CAGTGGAGTACATTGAAGCCGGTA-AT-TCTATCTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGATGGTAGATCT-TACCTCCCTGAGCAG
* ** * * **
1800193 CAGTGGAATAGATTGAAGATTATAGACCTTACCTCTCTCG-GTTG
1 CAGTGGAGTAGATTGAAGATGGTAGATCTTACCTCCCT-GAGCAG
* * * * *
1800237 CAGTGGAGTAGGTT---GATGGCAGATTTTACCGCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGATGGTAGATCTTACCTCCCTGA-G-CAG
* * *** * *
1800279 TAGTGGAGTACATTGAAGCCAGTA-ATTTTACTTCCCTGAGCAG
1 CAGTGGAGTAGATTGAAGATGGTAGATCTTACCTCCCTGAGCAG
* * ** * **
1800322 CAGTGGAATAGATTAAAGATTTTAGATCTTACCTCCCTAATTAG
1 CAGTGGAGTAGATTGAAGATGGTAGATCTTACCTCCCTGAGCAG
* * * * * * *
1800366 TAGTGGAGTAGATCGAAGATGGTGGATTTTACGTCCCTGTG-ATTA
1 CAGTGGAGTAGATTGAAGATGGTAGATCTTACCTCCCTGAGCA--G
* * * * *
1800411 CAGTGGAGTACATTGAAGCTAGTA-AT-TCTACTTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGATGGTAGATCT-TACCTCCCTGAGCAG
* * * * * *
1800454 CAGTGGAATAGATTGAAGAT-TTCAGATCTTATCTTCCTAAGCTG
1 CAGTGGAGTAGATTGAAGATGGT-AGATCTTACCTCCCTGAGCAG
* * * *
1800498 TAGTGGAGTAGATTAAAGATGGCAGATTTTACCTCCCTG
1 CAGTGGAGTAGATTGAAGATGGTAGATCTTACCTCCCTG
1800537 TGGTTACAGC
Statistics
Matches: 240, Mismatches: 85, Indels: 37
0.66 0.23 0.10
Matches are distributed among these distances:
40 1 0.00
41 14 0.06
42 14 0.06
43 56 0.23
44 130 0.54
45 25 0.10
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
CAGTGGAGTAGATTGAAGATGGTAGATCTTACCTCCCTGAGCAG
Found at i:1800443 original size:132 final size:130
Alignment explanation
Indices: 1800129--1800581 Score: 534
Period size: 132 Copynumber: 3.5 Consensus size: 130
1800119 GTTGATTACG
* * *
1800129 GATTTTACCCCCCTGAGGTTACAGTGGAGTACATTGAAGCCGGTAATTCTA-TCTCCCTGGGCAG
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGAGCAG
* * * ** * **
1800193 CAGTGGAATAGATTGAAGATTATAGACCTTACCTCTCTCGGTTGCAGTGGAGTAG--GTTGATGG
65 CAGTGGAATAGATTGAAGATTTTAGATCTTACCTCCCT-AATTGTAGTGGAGTAGATGAAGATGG
1800256 CA
129 CA
* * *
1800258 GATTTTACCGCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTTTACTTCCCTGAGCAGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGAGCAGC
*
1800323 AGTGGAATAGATTAAAGATTTTAGATCTTACCTCCCTAATTAGTAGTGGAGTAGATCGAAGATGG
66 AGTGGAATAGATTGAAGATTTTAGATCTTACCTCCCTAATT-GTAGTGGAGTAGAT-GAAGATGG
**
1800388 TG
129 CA
* * * * *
1800390 GATTTTACGTCCCTGTGATTACAGTGGAGTACATTGAAGCTAGTAATTCTACTTCCCTGGGCAGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGAGCAGC
* * * * *
1800455 AGTGGAATAGATTGAAGATTTCAGATCTTATCTTCCTAAGCTGTAGTGGAGTAGATTAAAGATGG
66 AGTGGAATAGATTGAAGATTTTAGATCTTACCTCCCTAA-TTGTAGTGGAGTAGA-TGAAGATGG
1800520 CA
129 CA
* * * * * *
1800522 GATTTTACCTCCCTGTGGTTACAGCGGAGTACATTAAAGCCAGTTATCCTATTTCCCTGA
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGA
1800582 TATTACAGTG
Statistics
Matches: 276, Mismatches: 41, Indels: 11
0.84 0.12 0.03
Matches are distributed among these distances:
128 2 0.01
129 102 0.37
130 1 0.00
132 169 0.61
133 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (130 bp):
GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGAGCAGC
AGTGGAATAGATTGAAGATTTTAGATCTTACCTCCCTAATTGTAGTGGAGTAGATGAAGATGGCA
Found at i:1800863 original size:189 final size:185
Alignment explanation
Indices: 1800530--1800878 Score: 484
Period size: 189 Copynumber: 1.9 Consensus size: 185
1800520 CAGATTTTAC
* * * * * * *
1800530 CTCCCTGTGGTTACAGCGGAGTACATTAAAGCCAGTTATCCTATTTCCCTGATATTACAGTGGAG
1 CTCCCTGAGGTTACAGCGGAGCAAATCAAAGCCAGTAATCCTATTTCCCTAAGATTACAGTGGAG
* * *
1800595 TGGATTGAGAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAGTCTTATCTCCC
66 CGGATTGAGAGGATCTTATCTCTCTGAAGTTACAGAAGAGTAGATCACATCAAGTCTTATCTCCC
*
1800660 TGAAATAACAGTGGAATAGACCGAAGAATTCCTAATCGAAAATGGCAAACCTTAT
131 TGAAATAACAGTGGAATAGACCAAAGAATTCCTAATCGAAAATGGCAAACCTTAT
*
1800715 CTCCCTGAGGTTACAGTGGAGCAAATCAAAGCCAGTAATCCTATTTCCCTAAGATTACAGTGGAG
1 CTCCCTGAGGTTACAGCGGAGCAAATCAAAGCCAGTAATCCTATTTCCCTAAGATTACAGTGGAG
* * *
1800780 CGGATAAAAATTA-AGGATCTTATCTCTCTGAAGTTACAGAAGATTAGATCACATCAGGTCTTAT
66 CGGAT-----TGAGAGGATCTTATCTCTCTGAAGTTACAGAAGAGTAGATCACATCAAGTCTTAT
* * *
1800844 CTCCCTGAGATTACAGTGGAATAGACTAAAGAATT
126 CTCCCTGAAATAACAGTGGAATAGACCAAAGAATT
1800879 ACAGATCTTA
Statistics
Matches: 141, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
185 61 0.43
189 78 0.55
190 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (185 bp):
CTCCCTGAGGTTACAGCGGAGCAAATCAAAGCCAGTAATCCTATTTCCCTAAGATTACAGTGGAG
CGGATTGAGAGGATCTTATCTCTCTGAAGTTACAGAAGAGTAGATCACATCAAGTCTTATCTCCC
TGAAATAACAGTGGAATAGACCAAAGAATTCCTAATCGAAAATGGCAAACCTTAT
Found at i:1800956 original size:50 final size:48
Alignment explanation
Indices: 1800883--1801036 Score: 112
Period size: 50 Copynumber: 3.1 Consensus size: 48
1800873 AGAATTACAG
**
1800883 ATCTTACTCCCCAGGCGATACAGTGGAACAGATTAAAGCCACATCGGTGA
1 ATCTTACT-CCCAGAAG-TACAGTGGAACAGATTAAAGCCACATCGGTGA
* * ** * * * * * *
1800933 ATCTTTCTTCACC-GACATTACAGTTAAAAAGATTAAAACTATAACGGCGA
1 ATCTTAC-TC-CCAGA-AGTACAGTGGAACAGATTAAAGCCACATCGGTGA
* * *
1800983 ATCTTACTCCCAGGAGGTGCAATGGAACAGATTAAAGCCACATCGGTGA
1 ATCTTACTCCCA-GAAGTACAGTGGAACAGATTAAAGCCACATCGGTGA
1801032 ATCTT
1 ATCTT
1801037 GTTTCCCCAA
Statistics
Matches: 74, Mismatches: 25, Indels: 11
0.67 0.23 0.10
Matches are distributed among these distances:
48 2 0.03
49 29 0.39
50 40 0.54
51 3 0.04
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (48 bp):
ATCTTACTCCCAGAAGTACAGTGGAACAGATTAAAGCCACATCGGTGA
Found at i:1802674 original size:3 final size:3
Alignment explanation
Indices: 1802666--1802720 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
1802656 TAATATTACC
*
1802666 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1802714 ATT ATT A
1 ATT ATT A
1802721 CATTTAATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1813590 original size:13 final size:14
Alignment explanation
Indices: 1813564--1813593 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1813554 TCTAAACAAA
1813564 TAATTACATTCAAT
1 TAATTACATTCAAT
1813578 TAATTAC-TTCAAT
1 TAATTACATTCAAT
1813591 TAA
1 TAA
1813594 CATCAAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATTACATTCAAT
Found at i:1815321 original size:13 final size:13
Alignment explanation
Indices: 1815305--1815387 Score: 62
Period size: 13 Copynumber: 6.4 Consensus size: 13
1815295 TTAAATGACC
1815305 ATATGAAATGGTT
1 ATATGAAATGGTT
*
1815318 ATATGAAATGGCT
1 ATATGAAATGGTT
*
1815331 ATATG-AATCGATT
1 ATATGAAAT-GGTT
**
1815344 ATATGGAAATAATT
1 ATAT-GAAATGGTT
* * *
1815358 ATATGGAGT-GCT
1 ATATGAAATGGTT
*
1815370 ATATGAAATGTTT
1 ATATGAAATGGTT
1815383 ATATG
1 ATATG
1815388 GATAGATATG
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
12 11 0.20
13 32 0.59
14 8 0.15
15 3 0.06
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (13 bp):
ATATGAAATGGTT
Found at i:1815460 original size:15 final size:15
Alignment explanation
Indices: 1815440--1815469 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1815430 TGGGAATGTG
1815440 AATTGTTAAATGAAT
1 AATTGTTAAATGAAT
*
1815455 AATTGTTGAATGAAT
1 AATTGTTAAATGAAT
1815470 GGTATATCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (15 bp):
AATTGTTAAATGAAT
Found at i:1830431 original size:33 final size:33
Alignment explanation
Indices: 1830360--1830437 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
1830350 TCTTTATTCT
*
1830360 ATGTTTATTGTCCCACTGGACTATCTCTATTTT
1 ATGTTTATTGTCCCACTGGACTATCTCTATTTC
* * **
1830393 GTGTTTATTGTTCCGGTGGACTATCTCTATTTC
1 ATGTTTATTGTCCCACTGGACTATCTCTATTTC
*
1830426 ATGTTTACTGTC
1 ATGTTTATTGTC
1830438 TTGACAAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.49
Consensus pattern (33 bp):
ATGTTTATTGTCCCACTGGACTATCTCTATTTC
Found at i:1839700 original size:24 final size:25
Alignment explanation
Indices: 1839673--1839725 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
1839663 GGCTTTCCGG
1839673 AGCTTACC-AA-TATTGGCTCGCATA
1 AGCTTACCTAATTA-TGGCTCGCATA
**
1839697 AGC-TACCTAATTATGGCTCTTATA
1 AGCTTACCTAATTATGGCTCGCATA
1839721 AGCTT
1 AGCTT
1839726 CCCGATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 4 0.17
24 17 0.71
25 3 0.12
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (25 bp):
AGCTTACCTAATTATGGCTCGCATA
Found at i:1839749 original size:25 final size:25
Alignment explanation
Indices: 1839597--1839865 Score: 87
Period size: 25 Copynumber: 10.8 Consensus size: 25
1839587 CGACTCTAAT
* *
1839597 GAGCTTCCCGATTAATGGCTTTCCA
1 GAGCTTCCCGATTAATGGCTCTCTA
* *
1839622 GACCTTCCCGA-TAATTGGCTCT-AA
1 GAGCTTCCCGATTAA-TGGCTCTCTA
* * * * **
1839646 TGACCTTCCTGATAAATGGCTTTCCG
1 -GAGCTTCCCGATTAATGGCTCTCTA
* * * *
1839672 GAGCTTACC-AATATTGGCTCGCATA
1 GAGCTTCCCGATTAATGGCTCTC-TA
* **
1839697 -AGCTACCTAATT-ATGGCTCT-TA
1 GAGCTTCCCGATTAATGGCTCTCTA
*
1839719 TAAGCTTCCCGATTAATGGCTCTCTA
1 -GAGCTTCCCGATTAATGGCTCTCTA
* *
1839745 GAGCTTCTCGA-TAATTGGCTCT-AA
1 GAGCTTCCCGATTAA-TGGCTCTCTA
** *
1839769 TGAGCTTCCCGAGAAATGGCTCT-TC
1 -GAGCTTCCCGATTAATGGCTCTCTA
* *
1839794 GAAGCTTCTCGA-TAATTGGCT-TGCAA
1 G-AGCTTCCCGATTAA-TGGCTCT-CTA
* * *
1839820 GAGCTTTCCG-TTATATGGCTCACTT
1 GAGCTTCCCGATTA-ATGGCTCTCTA
*
1839845 GAGATTCCCG-TTACATGGCTC
1 GAGCTTCCCGATTA-ATGGCTC
1839866 GAAAAAGTTT
Statistics
Matches: 178, Mismatches: 46, Indels: 40
0.67 0.17 0.15
Matches are distributed among these distances:
22 2 0.01
24 40 0.22
25 128 0.72
26 8 0.04
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCTA
Found at i:1839825 original size:50 final size:50
Alignment explanation
Indices: 1839710--1839814 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
1839700 TACCTAATTA
* * ** *
1839710 TGGCTCTTATAAGCTTCCCGATTAATGGCTCTCTAGAGCTTCTCGATAAT
1 TGGCTCTAATGAGCTTCCCGAGAAATGGCTCTCGAGAGCTTCTCGATAAT
1839760 TGGCTCTAATGAGCTTCCCGAGAAATGGCTCTTCGA-AGCTTCTCGATAAT
1 TGGCTCTAATGAGCTTCCCGAGAAATGGCTC-TCGAGAGCTTCTCGATAAT
1839810 TGGCT
1 TGGCT
1839815 TGCAAGAGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
50 46 0.94
51 3 0.06
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (50 bp):
TGGCTCTAATGAGCTTCCCGAGAAATGGCTCTCGAGAGCTTCTCGATAAT
Found at i:1839838 original size:50 final size:49
Alignment explanation
Indices: 1839710--1839840 Score: 133
Period size: 50 Copynumber: 2.6 Consensus size: 49
1839700 TACCTAATTA
* * *
1839710 TGGCTCTTATAAGCTTCCCGATTAATGGCTCTCTAGAGCTTCTCGATAAT
1 TGGCTCTAATGAGCTTCCCG-TTAATGGCTCTCGAGAGCTTCTCGATAAT
**
1839760 TGGCTCTAATGAGCTTCCCGAGAAATGGCTCTTCGA-AGCTTCTCGATAAT
1 TGGCTCTAATGAGCTTCCCG-TTAATGGCTC-TCGAGAGCTTCTCGATAAT
*
1839810 TGGCT-TGCAA-GAGCTTTCCGTTATATGGCTC
1 TGGCTCT--AATGAGCTTCCCGTTA-ATGGCTC
1839841 ACTTGAGATT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
49 2 0.03
50 62 0.90
51 5 0.07
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (49 bp):
TGGCTCTAATGAGCTTCCCGTTAATGGCTCTCGAGAGCTTCTCGATAAT
Found at i:1840852 original size:83 final size:82
Alignment explanation
Indices: 1840741--1840960 Score: 209
Period size: 82 Copynumber: 2.7 Consensus size: 82
1840731 AACAATTCAG
* * **
1840741 TATACTCAAAATTGTTCA-AC-GACCTAGCACACGGGCGTGTGGTTTGGCCGTGTGTCCCCTACG
1 TATACTC-AAATTATTCACACAG-CCTAGCACACGGGCGTGTGGCTTGGCCGTGTGAACCCTAC-
* *
1840804 TCTTTTAAATT-TTG-AA-ACAGA
63 AC-TTT--ATTAATGCAAGACA-A
** * * *
1840825 -ATACTCAAATTATTCACACAGTGTAGCACACAGGCATGTGGCTTGGCCATGTGAACCCTACACT
1 TATACTCAAATTATTCACACAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGAACCCTACACT
*
1840889 TTATTAATGCAAGTCAA
66 TTATTAATGCAAGACAA
* *
1840906 TATGCTCGAATTATTCACACAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGA
1 TATACTCAAATTATTCACACAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGA
1840961 CACAAGTTAG
Statistics
Matches: 111, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
79 3 0.03
80 2 0.02
81 6 0.05
82 59 0.53
83 40 0.36
84 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (82 bp):
TATACTCAAATTATTCACACAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGAACCCTACACT
TTATTAATGCAAGACAA
Found at i:1846898 original size:25 final size:25
Alignment explanation
Indices: 1846870--1847121 Score: 144
Period size: 25 Copynumber: 10.2 Consensus size: 25
1846860 CACACCACAA
1846870 CTCTAATGAGCTTCCCGATTAATGG
1 CTCTAATGAGCTTCCCGATTAATGG
* *
1846895 CTCT-CTAGAGCTTCTCGA-TAATTGG
1 CTCTAAT-GAGCTTCCCGATTAA-TGG
** *
1846920 CTCTAATGAGCTTCTTGATAAATGG
1 CTCTAATGAGCTTCCCGATTAATGG
** *
1846945 CTCT-CCGAAGCTTCCCGA-TATTGG
1 CTCTAATG-AGCTTCCCGATTAATGG
** ** *
1846969 CTCCCATGAGCTTCCTAATT-ATAG
1 CTCTAATGAGCTTCCCGATTAATGG
* * *
1846993 CTCTTATAAGCTTCCCAATTAATGG
1 CTCTAATGAGCTTCCCGATTAATGG
* *
1847018 CTCT-CTAGAGCTTCTCGA-TAATTGG
1 CTCTAAT-GAGCTTCCCGATTAA-TGG
* * * *
1847043 CTCTAATGAGCTTCACAATAAATGA
1 CTCTAATGAGCTTCCCGATTAATGG
* **
1847068 CTCTCCA-GAGCTTTTCGA-TAATTGG
1 CTCT-AATGAGCTTCCCGATTAA-TGG
*
1847093 CTCTAATGAGCTTCCCGATAAATGG
1 CTCTAATGAGCTTCCCGATTAATGG
1847118 CTCT
1 CTCT
1847122 CCGAAGCTTC
Statistics
Matches: 169, Mismatches: 42, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
24 45 0.27
25 115 0.68
26 9 0.05
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (25 bp):
CTCTAATGAGCTTCCCGATTAATGG
Found at i:1846995 original size:24 final size:24
Alignment explanation
Indices: 1846968--1847013 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1846958 CCCGATATTG
* *
1846968 GCTCCCATGAGCTTCCTAATTATA
1 GCTCCCATAAGCTTCCCAATTATA
**
1846992 GCTCTTATAAGCTTCCCAATTA
1 GCTCCCATAAGCTTCCCAATTA
1847014 ATGGCTCTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (24 bp):
GCTCCCATAAGCTTCCCAATTATA
Found at i:1847072 original size:50 final size:50
Alignment explanation
Indices: 1846992--1847131 Score: 192
Period size: 50 Copynumber: 2.8 Consensus size: 50
1846982 CCTAATTATA
* * * *
1846992 GCTCTTATAAGCTTCCCAATTAATGGCTCTCTAGAGCTTCTCGATAATTG
1 GCTCTAATGAGCTTCCCAATAAATGGCTCTCCAGAGCTTCTCGATAATTG
* * *
1847042 GCTCTAATGAGCTTCACAATAAATGACTCTCCAGAGCTTTTCGATAATTG
1 GCTCTAATGAGCTTCCCAATAAATGGCTCTCCAGAGCTTCTCGATAATTG
*
1847092 GCTCTAATGAGCTTCCCGATAAATGGCTCTCC-GAAGCTTC
1 GCTCTAATGAGCTTCCCAATAAATGGCTCTCCAG-AGCTTC
1847132 CCATTGCACG
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 77 0.99
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (50 bp):
GCTCTAATGAGCTTCCCAATAAATGGCTCTCCAGAGCTTCTCGATAATTG
Found at i:1851737 original size:50 final size:50
Alignment explanation
Indices: 1851603--1851739 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 50
1851593 AAGGTCAAAG
* * *
1851603 TAAGTGGCAATATATCTACATATCAGTGGTGGCTAGTCTACAAAGTGTTA
1 TAAGTGGCAGTATATCTGCATATCAGTGGTGGCTTGTCTACAAAGTGTTA
* * *
1851653 TAAGTGGTAGTACATTTGCATATCAGTGGTGGCTTGTCCT-CAAAGTGTTA
1 TAAGTGGCAGTATATCTGCATATCAGTGGTGGCTTGT-CTACAAAGTGTTA
* * *
1851703 TTAGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGT
1 TAAGTGGCAGTATATCTGCATATCAGTGGTGGCTTGT
1851740 GCACAAATGG
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 72 0.97
51 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (50 bp):
TAAGTGGCAGTATATCTGCATATCAGTGGTGGCTTGTCTACAAAGTGTTA
Found at i:1852276 original size:6 final size:6
Alignment explanation
Indices: 1852265--1852291 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1852255 TCAATTTATC
1852265 GAATTT GAATTT GAATTT GAATTT GAA
1 GAATTT GAATTT GAATTT GAATTT GAA
1852292 GTAACTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (6 bp):
GAATTT
Found at i:1853400 original size:19 final size:18
Alignment explanation
Indices: 1853361--1853400 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1853351 AATTGAATTA
* *
1853361 AATTATTCGAGTTATTCG
1 AATTATTCGAGTAACTCG
1853379 AATTATTCGAGTCAACTCG
1 AATTATTCGAGT-AACTCG
1853398 AAT
1 AAT
1853401 AAGAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (18 bp):
AATTATTCGAGTAACTCG
Found at i:1858836 original size:3 final size:3
Alignment explanation
Indices: 1858828--1858861 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1858818 ATTCAATTGC
*
1858828 ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1858862 ATCAATCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1872178 original size:9 final size:9
Alignment explanation
Indices: 1872166--1872194 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
1872156 TGTAATTGTG
1872166 CTTTCAACT
1 CTTTCAACT
1872175 CTTTCAACT
1 CTTTCAACT
1872184 CTTTCAACT
1 CTTTCAACT
1872193 CT
1 CT
1872195 GTAGGTGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (9 bp):
CTTTCAACT
Found at i:1875109 original size:40 final size:41
Alignment explanation
Indices: 1875032--1875109 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
1875022 TGGCGTTAGC
*
1875032 AGAAAAATGCCGCAATAAATCAAGCAATAGTGGCGTTTATG
1 AGAAAAATGCCGCAATAAATCAAGCAATAGTGCCGTTTATG
* *
1875073 AGAAAAATGCCGCAA-AAGGT-GAGCAATAGTGCCGTTT
1 AGAAAAATGCCGCAATAA-ATCAAGCAATAGTGCCGTTT
1875110 TTGGTCTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 17 0.52
41 16 0.48
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (41 bp):
AGAAAAATGCCGCAATAAATCAAGCAATAGTGCCGTTTATG
Found at i:1875644 original size:17 final size:17
Alignment explanation
Indices: 1875624--1875658 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1875614 TTTCAGCCCC
1875624 TAAAAAATTTCTGATTG
1 TAAAAAATTTCTGATTG
1875641 TAAAAAATTTCTGATTG
1 TAAAAAATTTCTGATTG
1875658 T
1 T
1875659 GCCCCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (17 bp):
TAAAAAATTTCTGATTG
Found at i:1876213 original size:41 final size:41
Alignment explanation
Indices: 1876156--1876234 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
1876146 AATTTTAATT
1876156 AAGTTGAGCAATAGTGGCATTTTTGGTCCAAACACCGCAAA
1 AAGTTGAGCAATAGTGGCATTTTTGGTCCAAACACCGCAAA
*
1876197 AAGTTGAGCAATAGTGGCATTTTTGGTCCAAACGCCGC
1 AAGTTGAGCAATAGTGGCATTTTTGGTCCAAACACCGC
1876235 GAATATGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (41 bp):
AAGTTGAGCAATAGTGGCATTTTTGGTCCAAACACCGCAAA
Found at i:1876417 original size:115 final size:116
Alignment explanation
Indices: 1876230--1876441 Score: 313
Period size: 115 Copynumber: 1.8 Consensus size: 116
1876220 TGGTCCAAAC
* * ** *
1876230 GCCGCGAATATGTATTAAAAGTTTGCAAAACGGCGTCGTTTTTAGCTGTATTTTTAGTGGCGTTT
1 GCCGCGAATATGTATTAAAAGTTTACAAAACGGCGTCATTTTTAGCTACATTTTTAGTGGCATTT
* *
1876295 TGTCTAAAACGCCGC-AAAGGTTATACATTAGCAGCATTTTCACCAAAAAT
66 TGACTAAAACGCCACAAAAGGTTATACATTAGCAGCATTTTCACCAAAAAT
*
1876345 GCCGTGAATATGTATTAAAAGTTTACAAAACGATGC-T-ATTTTTAGCTACATTTTTAGTGGCAT
1 GCCGCGAATATGTATTAAAAGTTTACAAAACG--GCGTCATTTTTAGCTACATTTTTAGTGGCAT
1876408 TTTGACTAAAACGCCACAAAAGGTTATACATTAG
64 TTTGACTAAAACGCCACAAAAGGTTATACATTAG
1876442 TGGTGTTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
115 67 0.78
116 17 0.20
117 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (116 bp):
GCCGCGAATATGTATTAAAAGTTTACAAAACGGCGTCATTTTTAGCTACATTTTTAGTGGCATTT
TGACTAAAACGCCACAAAAGGTTATACATTAGCAGCATTTTCACCAAAAAT
Found at i:1876584 original size:14 final size:15
Alignment explanation
Indices: 1876551--1876590 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1876541 TTCCCTGAAA
* *
1876551 TCCCTAAGTTATTCT
1 TCCCTAATTTCTTCT
1876566 TCCCTAATTTCTT-T
1 TCCCTAATTTCTTCT
1876580 TCCCTAATTTC
1 TCCCTAATTTC
1876591 CCAACTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.17, C:0.30, G:0.03, T:0.50
Consensus pattern (15 bp):
TCCCTAATTTCTTCT
Found at i:1881274 original size:55 final size:55
Alignment explanation
Indices: 1881088--1881241 Score: 251
Period size: 54 Copynumber: 2.8 Consensus size: 55
1881078 TAGACTAGGT
* *
1881088 CTTACACTATGTGGTCTT--CTTGTCCCCATATGATGCCATAGCAACTGGCTAGAC
1 CTTACACTATATGGTCTTCGCTTG-GCCCATATGATGCCATAGCAACTGGCTAGAC
1881142 CTTACACTATATGGTCTTCGCTT-GCCCATATGATGCCATAGCAACTGGCTAGAC
1 CTTACACTATATGGTCTTCGCTTGGCCCATATGATGCCATAGCAACTGGCTAGAC
*
1881196 CTTACACTATATGGTCTTCGCTTGGCCCATGTGATGCCATAGCAAC
1 CTTACACTATATGGTCTTCGCTTGGCCCATATGATGCCATAGCAAC
1881242 CAACTATGCC
Statistics
Matches: 94, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
54 70 0.74
55 21 0.22
56 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (55 bp):
CTTACACTATATGGTCTTCGCTTGGCCCATATGATGCCATAGCAACTGGCTAGAC
Found at i:1887959 original size:43 final size:44
Alignment explanation
Indices: 1887898--1887993 Score: 140
Period size: 43 Copynumber: 2.2 Consensus size: 44
1887888 TAGTGTTTAT
* **
1887898 GTGTAAGACCATAGCTGGGCTACTGGCATCGATTTGAGATTT-C
1 GTGTAAGACAATAGCTGGGCTACTGGCATCGATACGAGATTTGC
*
1887941 GTGTAAGACAATAGCTGGGCTATTGGCATCGATACGAGATTTGC
1 GTGTAAGACAATAGCTGGGCTACTGGCATCGATACGAGATTTGC
*
1887985 ATGTAAGAC
1 GTGTAAGAC
1887994 CATGTTTGAG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 38 0.81
44 9 0.19
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (44 bp):
GTGTAAGACAATAGCTGGGCTACTGGCATCGATACGAGATTTGC
Found at i:1893730 original size:43 final size:44
Alignment explanation
Indices: 1893667--1893762 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 44
1893657 TGTTTATGTG
** *
1893667 TAAGACCATAGCTGGACTATTGGCATCGATTTGAGATTT-CGTA
1 TAAGACCATAGCTGGACTATTGGCATCGATACGAGATTTGCATA
* * *
1893710 TAAGACCATAGTTGGGCTATTGGCATCGATACGAGATTTGCATG
1 TAAGACCATAGCTGGACTATTGGCATCGATACGAGATTTGCATA
1893754 TAAGACCAT
1 TAAGACCAT
1893763 GTTTGGGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 35 0.76
44 11 0.24
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (44 bp):
TAAGACCATAGCTGGACTATTGGCATCGATACGAGATTTGCATA
Found at i:1894240 original size:16 final size:16
Alignment explanation
Indices: 1894221--1894253 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1894211 ATGTGTGTCT
1894221 AAATAAATGTTAATAC
1 AAATAAATGTTAATAC
1894237 AAATAAATGTTAATAC
1 AAATAAATGTTAATAC
1894253 A
1 A
1894254 GCAGTAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATAAATGTTAATAC
Found at i:1894506 original size:43 final size:43
Alignment explanation
Indices: 1894455--1894631 Score: 282
Period size: 43 Copynumber: 4.1 Consensus size: 43
1894445 GAAAAAATAT
* * * * * *
1894455 CGCTAAAGACTATAACCTTTAGCGGCGCTTTTCTCACAAATGT
1 CGCTAAAGACCATGACCTTTAACGGCGCTTTTATCACAAACGC
1894498 CGCTAAAGACCATGACCTTTAACGGCGCTTTTATCACAAACGC
1 CGCTAAAGACCATGACCTTTAACGGCGCTTTTATCACAAACGC
*
1894541 CGCGAAAGACCATGACCTTTAACGGCGCTTTTATCACAAACGC
1 CGCTAAAGACCATGACCTTTAACGGCGCTTTTATCACAAACGC
*
1894584 CGCGAAAGACCATGACCTTTAACGGCGCTTTTATCACAAACGC
1 CGCTAAAGACCATGACCTTTAACGGCGCTTTTATCACAAACGC
1894627 CGCTA
1 CGCTA
1894632 TAGATCAAAT
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 126 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCTAAAGACCATGACCTTTAACGGCGCTTTTATCACAAACGC
Found at i:1894604 original size:86 final size:86
Alignment explanation
Indices: 1894459--1894655 Score: 279
Period size: 86 Copynumber: 2.3 Consensus size: 86
1894449 AAATATCGCT
* * * * * *
1894459 AAAGACTATAACCTTTAGCGGCGCTTTTCTCACAAATGTCGCTAAAGACCATGACCTTTAACGGC
1 AAAGACCATAACCTTTAACGGCGCTTTTATCACAAACGCCGCGAAAGACCATGACCTTTAACGGC
1894524 GCTTTTATCACAAACGCCGCG
66 GCTTTTATCACAAACGCCGCG
*
1894545 AAAGACCATGACCTTTAACGGCGCTTTTATCACAAACGCCGCGAAAGACCATGACCTTTAACGGC
1 AAAGACCATAACCTTTAACGGCGCTTTTATCACAAACGCCGCGAAAGACCATGACCTTTAACGGC
*
1894610 GCTTTTATCACAAACGCCGCT
66 GCTTTTATCACAAACGCCGCG
* * * *
1894631 ATAGATCA-AATCTTTAGCGGCGCTT
1 AAAGACCATAACCTTTAACGGCGCTT
1894656 CTCGTAAAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
85 14 0.14
86 84 0.86
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (86 bp):
AAAGACCATAACCTTTAACGGCGCTTTTATCACAAACGCCGCGAAAGACCATGACCTTTAACGGC
GCTTTTATCACAAACGCCGCG
Found at i:1897695 original size:247 final size:248
Alignment explanation
Indices: 1897246--1897742 Score: 987
Period size: 247 Copynumber: 2.0 Consensus size: 248
1897236 TATTTCATTA
1897246 TTATATAAACTTAATAATTTTTCATTTTTATAATTAATTTTATGTAGATATTTGTATCATGTTAT
1 TTATATAAACTTAATAATTTTTCATTTTTATAATTAATTTTATGTAGATATTTGTATCATGTTAT
1897311 TCTAAGTTATATTATATGTTTCATTATTTTTTATTCTGTCGTGTCTCAATTTATTATATATTTAG
66 TCTAAGTTATATTATATGTTTCATTATTTTTTATTCTGTCGTGTCTCAATTTATTATATATTTAG
1897376 CACAGTTTTGGTTTATTTTATATTTTTATGTTTGTATTATATTTGTTATTATTGTGTTATTTTTC
131 CACAGTTTTGGTTTATTTTATATTTTTATGTTTGTATTATATTTGTTATTATTGTGTTATTTTTC
1897441 TGCATTAAGAGTATTATATATTTGTAATGTTTTTTTTCCACACTAATAATTTG
196 TGCATTAAGAGTATTATATATTTGTAATGTTTTTTTTCCACACTAATAATTTG
1897494 TTATATAAACTT-ATAATTTTTCATTTTTATAATTAATTTTATGTAGATATTTGTATCATGTTAT
1 TTATATAAACTTAATAATTTTTCATTTTTATAATTAATTTTATGTAGATATTTGTATCATGTTAT
1897558 TCTAAGTTATATTATATGTTTCATTATTTTTTATTCTGTCGTGTCTCAATTTATTATATATTTAG
66 TCTAAGTTATATTATATGTTTCATTATTTTTTATTCTGTCGTGTCTCAATTTATTATATATTTAG
1897623 CACAGTTTTGGTTTATTTTATATTTTTATGTTTGTATTATATTTGTTATTATTGTGTTATTTTTC
131 CACAGTTTTGGTTTATTTTATATTTTTATGTTTGTATTATATTTGTTATTATTGTGTTATTTTTC
1897688 TGCATTAAGAGTATTATATATTTGTAATGTTTTTTTTCCACACTAATAATTTG
196 TGCATTAAGAGTATTATATATTTGTAATGTTTTTTTTCCACACTAATAATTTG
1897741 TT
1 TT
1897743 TCATGTAGAT
Statistics
Matches: 249, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
247 237 0.95
248 12 0.05
ACGTcount: A:0.26, C:0.07, G:0.10, T:0.57
Consensus pattern (248 bp):
TTATATAAACTTAATAATTTTTCATTTTTATAATTAATTTTATGTAGATATTTGTATCATGTTAT
TCTAAGTTATATTATATGTTTCATTATTTTTTATTCTGTCGTGTCTCAATTTATTATATATTTAG
CACAGTTTTGGTTTATTTTATATTTTTATGTTTGTATTATATTTGTTATTATTGTGTTATTTTTC
TGCATTAAGAGTATTATATATTTGTAATGTTTTTTTTCCACACTAATAATTTG
Found at i:1899868 original size:194 final size:195
Alignment explanation
Indices: 1899525--1899918 Score: 763
Period size: 194 Copynumber: 2.0 Consensus size: 195
1899515 TATTTATTGT
1899525 TGAAATTTCGTAATAAACTACAGTAGCTTGTTGGTGAAGACTTTGAGGCATCCTTCCATGCAAAT
1 TGAAATTTCGTAATAAACTACAGTAGCTTGTTGGTGAAGACTTTGAGGCATCCTTCCATGCAAAT
*
1899590 CAATTGATTGTAGAAGGGATAAAATGCAATCAAACAACAAACCTGCATTGCCCGATTATAACGTG
66 CAATTGATTGTAGAAGGGATAAAATGCAATCAAACAACAAACCCGCATTGCCCGATTATAACGTG
1899655 ATCTCCTTTAACACGAAAGCAGAGGGATATATGAGCTGGGATATTGCTGTGCCTTTTTTCGTATC
131 ATCTCCTTTAACACGAAAGCAGAGGGATATATGAGCTGGGATATTGCTGTGCCTTTTTTCGTATC
*
1899720 TGAATTTTCGTAA-AAACTACAGTAGCTTGTTGGTGAAGACTTTGAGGCATCCTTCCATGCAAAT
1 TGAAATTTCGTAATAAACTACAGTAGCTTGTTGGTGAAGACTTTGAGGCATCCTTCCATGCAAAT
1899784 CAATTGATTGTAGAAGGGATAAAATGCAATCAAACAACAAACCCGCATTGCCCGATTATAACGTG
66 CAATTGATTGTAGAAGGGATAAAATGCAATCAAACAACAAACCCGCATTGCCCGATTATAACGTG
1899849 ATCTCCTTTAACACGAAAGCAGAGGGATATATGAGCTGGGATATTGCTGTGCCTTTTTTCGTATC
131 ATCTCCTTTAACACGAAAGCAGAGGGATATATGAGCTGGGATATTGCTGTGCCTTTTTTCGTATC
1899914 TGAAA
1 TGAAA
1899919 ACAATTGTGA
Statistics
Matches: 196, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
194 184 0.94
195 12 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (195 bp):
TGAAATTTCGTAATAAACTACAGTAGCTTGTTGGTGAAGACTTTGAGGCATCCTTCCATGCAAAT
CAATTGATTGTAGAAGGGATAAAATGCAATCAAACAACAAACCCGCATTGCCCGATTATAACGTG
ATCTCCTTTAACACGAAAGCAGAGGGATATATGAGCTGGGATATTGCTGTGCCTTTTTTCGTATC
Found at i:1900636 original size:78 final size:78
Alignment explanation
Indices: 1900492--1900636 Score: 213
Period size: 78 Copynumber: 1.9 Consensus size: 78
1900482 AGATGCAGAC
* * **
1900492 GGCTGCCGATTTGGGGAAATTGGGGGGAAAATAAAGGGAATCGGGGTAGGGGGAGAAATGGTTTG
1 GGCTACCGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGGGAGAAATGAATTG
1900557 GGAAAAATAAAAG
66 GGAAAAATAAAAG
*
1900570 GGCTACCGATTTTGGGAAATTGGGGGAAAAAATAAAGGGAATCGGGGTA-GGGGAGAAA-GCAAT
1 GGCTACCGATTTGGGGAAATTGGGGG-AAAAATAAAGGGAATCGGGGTAGGGGGAGAAATG-AAT
1900633 TGGG
64 TGGG
1900637 GGAAAAAAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
77 1 0.02
78 38 0.63
79 21 0.35
ACGTcount: A:0.34, C:0.06, G:0.41, T:0.18
Consensus pattern (78 bp):
GGCTACCGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGGGAGAAATGAATTG
GGAAAAATAAAAG
Found at i:1900748 original size:41 final size:41
Alignment explanation
Indices: 1900703--1900884 Score: 174
Period size: 41 Copynumber: 4.4 Consensus size: 41
1900693 TATTTTTTGA
* *
1900703 AAAAACACTGCTAAAGAC-CTGATAATTAGCGGCGCTTCTTT
1 AAAAACACCGCTAAAGACTC-GAGAATTAGCGGCGCTTCTTT
* * *
1900744 AAAAACGCCGCTAAAGACTCGAGAATTAGCAGCGCTTCTTCA
1 AAAAACACCGCTAAAGACTCGAGAATTAGCGGCGCTTCTT-T
* * * *
1900786 AAAAGAAACGTCGCTAAAGAC-CTGAGTATTAGCGGCGCCTCTTC
1 AAAA-ACAC--CGCTAAAGACTC-GAGAATTAGCGGCGCTTCTTT
*
1900830 AAAAAC-CCGCT-AAGACTCAAGAATTAGCGGCGCTTCTTT
1 AAAAACACCGCTAAAGACTCGAGAATTAGCGGCGCTTCTTT
**
1900869 AAAAACGTCGCTAAAG
1 AAAAACACCGCTAAAG
1900885 CCCCGAAAAC
Statistics
Matches: 115, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
39 28 0.24
40 9 0.08
41 37 0.32
42 6 0.05
43 3 0.03
44 5 0.04
45 27 0.23
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (41 bp):
AAAAACACCGCTAAAGACTCGAGAATTAGCGGCGCTTCTTT
Found at i:1900973 original size:38 final size:38
Alignment explanation
Indices: 1900925--1901034 Score: 105
Period size: 40 Copynumber: 2.8 Consensus size: 38
1900915 GCGCTTTTTG
1900925 AAAAA-CGCCGCTAATGCTCATTTTTAGCGGCATTTCC
1 AAAAAGCGCCGCTAATGCTCATTTTTAGCGGCATTTCC
* * * ** *
1900962 AAAAAGTGCCGCTAATACTCGATCTTTAGCGGTGTTTTCT
1 AAAAAGCGCCGCTAATGCTC-ATTTTTAGCGG-CATTTCC
* * *
1901002 TAAAAGCGCCGATAATGCTTGATTTTTAGCGGC
1 AAAAAGCGCCGCTAATGC-TCATTTTTAGCGGC
1901035 GTTTTTTATC
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
37 5 0.09
38 12 0.21
39 10 0.18
40 28 0.50
41 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (38 bp):
AAAAAGCGCCGCTAATGCTCATTTTTAGCGGCATTTCC
Found at i:1901030 original size:40 final size:40
Alignment explanation
Indices: 1900912--1901039 Score: 100
Period size: 40 Copynumber: 3.2 Consensus size: 40
1900902 AGGTTTTTTT
* * * * *
1900912 GCGGCGCTTTT-TGAAAAACGCCGCTAATGCTC-ATTTTTA
1 GCGGCG-TTTTCTTAAAAGCGCCGATAATACTCGATCTTTA
* ** * *
1900951 GCGGC-ATTTCCAAAAAGTGCCGCTAATACTCGATCTTTA
1 GCGGCGTTTTCTTAAAAGCGCCGATAATACTCGATCTTTA
* * * *
1900990 GCGGTGTTTTCTTAAAAGCGCCGATAATGCTTGATTTTTA
1 GCGGCGTTTTCTTAAAAGCGCCGATAATACTCGATCTTTA
1901030 GCGGCGTTTT
1 GCGGCGTTTT
1901040 TTATCCAAAC
Statistics
Matches: 69, Mismatches: 17, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
37 3 0.04
38 16 0.23
39 15 0.22
40 35 0.51
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (40 bp):
GCGGCGTTTTCTTAAAAGCGCCGATAATACTCGATCTTTA
Found at i:1912963 original size:20 final size:21
Alignment explanation
Indices: 1912940--1912991 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
1912930 GATACTATTT
1912940 TATCGATACTT-TTTGAAAAA-
1 TATCGATACTTATTT-AAAAAG
1912960 TATCGATACTTATTTAAAAAG
1 TATCGATACTTATTTAAAAAG
1912981 TATCGATACTT
1 TATCGATACTT
1912992 GTGGGATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
TATCGATACTTATTTAAAAAG
Found at i:1913933 original size:72 final size:73
Alignment explanation
Indices: 1913849--1913991 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 73
1913839 TTTAGCAAAA
1913849 TTTTTGGTTTTAAGTGGATAAAACCCATGAGGCTTGGATGTAGGCCTTTTAAATTATTGTGTTAA
1 TTTTTGGTTTTAAGTGGATAAAACCCATGAGGCTTGGATGTAGGCCTTTTAAATTATTGTGTTAA
1913914 AAAATGAT
66 AAAATGAT
1913922 TTTTTGG-TTTAAGTGGATAAAACCCATGAGGCTTGGATGTAGGCCTTTTAAATTATTGTGTTAA
1 TTTTTGGTTTTAAGTGGATAAAACCCATGAGGCTTGGATGTAGGCCTTTTAAATTATTGTGTTAA
1913986 AAAATG
66 AAAATG
1913992 TCATAAGGAA
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 63 0.90
73 7 0.10
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.39
Consensus pattern (73 bp):
TTTTTGGTTTTAAGTGGATAAAACCCATGAGGCTTGGATGTAGGCCTTTTAAATTATTGTGTTAA
AAAATGAT
Found at i:1914867 original size:27 final size:27
Alignment explanation
Indices: 1914800--1915180 Score: 200
Period size: 27 Copynumber: 14.1 Consensus size: 27
1914790 TCGGTATCTG
*
1914800 GACCGAAATACCCTCGAT-GGGTAAAAT
1 GACCGAAATACCC-CCATAGGGTAAAAT
** * *
1914827 GACTAAAATGCCCCAATAGGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* * * *
1914854 GATCGAAACACCCCCGTAAGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* *
1914881 GACC-ATAATACCCCCGTAGGATAAAAT
1 GACCGA-AATACCCCCATAGGGTAAAAT
* * * *
1914908 GACCGTAATACCCTCGTAAGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* * *
1914935 GATCGTAATACCCCTATAGGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* * *
1914962 AACCGCAATACCCCTATAGGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* * ***
1914989 GA-CTAGAATGCCCTTGTAGGGTAAAAT
1 GACCGA-AATACCCCCATAGGGTAAAAT
* * ** *
1915016 GACCGTAAT-GCCCTGTAGGATAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* * *
1915042 GACCGTAATACCGCTATAGGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* * * * **
1915069 GACTGTAATGCCACTGTAGGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* * *** *
1915096 GACTGTAATACCCTTGTAAGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* ** *
1915123 GACCGTAATACCCCTGTAAGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
*
1915150 GATC-ATAATACCCCTGCA-A-GGTAAAAT
1 GACCGA-AATACCCC--CATAGGGTAAAAT
1915177 GACC
1 GACC
1915181 ATAATGCTCT
Statistics
Matches: 287, Mismatches: 58, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
26 28 0.10
27 257 0.90
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (27 bp):
GACCGAAATACCCCCATAGGGTAAAAT
Found at i:1915089 original size:134 final size:135
Alignment explanation
Indices: 1914837--1915185 Score: 368
Period size: 134 Copynumber: 2.6 Consensus size: 135
1914827 GACTAAAATG
* * * * *
1914837 CCCCAATAGGGTAAAATGATC-GAAACACCCCCGTAAGGTAAAATGACCATAATACCCCCGTAGG
1 CCCCTATAAGGTAAAATGA-CAGTAATACCCCTGTAAGGTAAAATGACCATAATACCCCCGTAGG
* *
1914901 ATAAAATGACCGTAATACCCTCGTAAGGTAAAATGATCGTAATACCCCTATAGGGTAAAATAACC
65 ATAAAATGACCGTAATACCCTCATAAGGTAAAATGATCGTAATACCACTATAGGGTAAAATAACC
1914966 GCAATA
130 GCAATA
* * * * * * *
1914972 CCCCTATAGGGTAAAATGACTAG-AATGCCCTTGTAGGGTAAAATGACCGTAAT-GCCCTGTAGG
1 CCCCTATAAGGTAAAATGAC-AGTAATACCCCTGTAAGGTAAAATGACCATAATACCCCCGTAGG
* * * *
1915035 ATAAAATGACCGTAATACCGCT-ATAGGGTAAAATGA-CTGTAATGCCACTGTAGGGTAAAATGA
65 ATAAAATGACCGTAATACC-CTCATAAGGTAAAATGATC-GTAATACCACTATAGGGTAAAATAA
* *
1915098 CTGTAATA
128 CCGCAATA
* * * * * *
1915106 CCCTTGTAAGGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGATCATAATACCCCTGCAAGG
1 CCCCTATAAGGTAAAATGACAGTAATACCCCTGTAAGGTAAAATGACCATAATACCCCCG-TAGG
*
1915171 -TAAAATGACCATAAT
65 ATAAAATGACCGTAAT
1915186 GCTCTGGTGG
Statistics
Matches: 178, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
133 2 0.01
134 109 0.61
135 63 0.35
136 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (135 bp):
CCCCTATAAGGTAAAATGACAGTAATACCCCTGTAAGGTAAAATGACCATAATACCCCCGTAGGA
TAAAATGACCGTAATACCCTCATAAGGTAAAATGATCGTAATACCACTATAGGGTAAAATAACCG
CAATA
Found at i:1915183 original size:27 final size:27
Alignment explanation
Indices: 1914846--1915185 Score: 330
Period size: 27 Copynumber: 12.6 Consensus size: 27
1914836 GCCCCAATAG
* * * *
1914846 GGTAAAATGATCGAAACACCCCCGTAA
1 GGTAAAATGACCGTAATACCCCTGTAA
* *
1914873 GGTAAAATGACCATAATACCCCCGT-A
1 GGTAAAATGACCGTAATACCCCTGTAA
1914899 GGATAAAATGACCGTAATA-CCCTCGTAA
1 GG-TAAAATGACCGTAATACCCCT-GTAA
* * *
1914927 GGTAAAATGATCGTAATACCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAA
* * * *
1914954 GGTAAAATAACCGCAATACCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAA
* * * *
1914981 GGTAAAATGACTAG-AATGCCCTTGTAG
1 GGTAAAATGAC-CGTAATACCCCTGTAA
*
1915008 GGTAAAATGACCGTAAT-GCCCTGT-A
1 GGTAAAATGACCGTAATACCCCTGTAA
* * *
1915033 GGATAAAATGACCGTAATACCGCTATAG
1 GG-TAAAATGACCGTAATACCCCTGTAA
* * * *
1915061 GGTAAAATGACTGTAATGCCACTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAA
* *
1915088 GGTAAAATGACTGTAATACCCTTGTAA
1 GGTAAAATGACCGTAATACCCCTGTAA
1915115 GGTAAAATGACCGTAATACCCCTGTAA
1 GGTAAAATGACCGTAATACCCCTGTAA
* * *
1915142 GGTAAAATGATCATAATACCCCTGCAA
1 GGTAAAATGACCGTAATACCCCTGTAA
*
1915169 GGTAAAATGACCATAAT
1 GGTAAAATGACCGTAAT
1915186 GCTCTGGTGG
Statistics
Matches: 265, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.01
26 27 0.10
27 226 0.85
28 10 0.04
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAA
Found at i:1915246 original size:23 final size:23
Alignment explanation
Indices: 1915219--1915267 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1915209 TTTGCCCCTA
* *
1915219 GTGGTCAAATGATTGTTTTGTCT
1 GTGGTCAAATGACTGATTTGTCT
*
1915242 GTGGTTAAATGACTGATTTGTCT
1 GTGGTCAAATGACTGATTTGTCT
1915265 GTG
1 GTG
1915268 TTTGGTATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.18, C:0.08, G:0.29, T:0.45
Consensus pattern (23 bp):
GTGGTCAAATGACTGATTTGTCT
Found at i:1915282 original size:24 final size:24
Alignment explanation
Indices: 1915249--1915308 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
1915239 TCTGTGGTTA
*
1915249 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTATGATTT-G
*
1915273 TATGACTGATTTGTCTATGATTTG
1 AATGACTGATTTGTCTATGATTTG
1915297 AATGACTGATTT
1 AATGACTGATTT
1915309 TGAGCATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.22, C:0.08, G:0.23, T:0.47
Consensus pattern (24 bp):
AATGACTGATTTGTCTATGATTTG
Found at i:1915485 original size:26 final size:26
Alignment explanation
Indices: 1915433--1915488 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
1915423 ATACTATTAC
* **
1915433 TGGCAGCTTTGCTGCGATACTGTTGA
1 TGGCAACTTTGCTGCGATACTACTGA
*
1915459 TGGCAACTTTGCTGCGATGCTACTGA
1 TGGCAACTTTGCTGCGATACTACTGA
1915485 TGGC
1 TGGC
1915489 TTTGTGCCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.32
Consensus pattern (26 bp):
TGGCAACTTTGCTGCGATACTACTGA
Found at i:1915591 original size:64 final size:64
Alignment explanation
Indices: 1915523--1915656 Score: 189
Period size: 64 Copynumber: 2.1 Consensus size: 64
1915513 CCAATGTTTG
* * *
1915523 TGTGTCGATCAT-TTCCCTTTTACTAATGGCTGTGTGCCGATCATATCACTACTACTGATGGCTT
1 TGTGTCGATCATGTTACC-GTTACTAATGACTGTGTGCCGATCATATCACTACTACTGATGGCTT
* * * *
1915587 TGTGTCGATCATGTTACCGTTATTGATGACTGTGTGCCGGTCATATCACTGCTACTGATGGCTT
1 TGTGTCGATCATGTTACCGTTACTAATGACTGTGTGCCGATCATATCACTACTACTGATGGCTT
1915651 TGTGTC
1 TGTGTC
1915657 AATCCCATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 58 0.94
65 4 0.06
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (64 bp):
TGTGTCGATCATGTTACCGTTACTAATGACTGTGTGCCGATCATATCACTACTACTGATGGCTT
Found at i:1915614 original size:32 final size:32
Alignment explanation
Indices: 1915477--1915656 Score: 121
Period size: 32 Copynumber: 5.6 Consensus size: 32
1915467 TTGCTGCGAT
* *
1915477 GCTACTGATGGCTTTGTGCCGATCATATTACC
1 GCTACTGATGGCTTTGTGTCGATCATATCACC
* ** * *
1915509 GTTACCAAT-GTTTGTGTGTCGATCATTTC-CC
1 GCTACTGATGGCTT-TGTGTCGATCATATCACC
** * * * *
1915540 TTTTACTAATGGCTGTGTGCCGATCATATCACT
1 -GCTACTGATGGCTTTGTGTCGATCATATCACC
* * *
1915573 ACTACTGATGGCTTTGTGTCGATCATGTTACC
1 GCTACTGATGGCTTTGTGTCGATCATATCACC
* * * * * * *
1915605 GTTATTGATGACTGTGTGCCGGTCATATCACT
1 GCTACTGATGGCTTTGTGTCGATCATATCACC
1915637 GCTACTGATGGCTTTGTGTC
1 GCTACTGATGGCTTTGTGTC
1915657 AATCCCATTA
Statistics
Matches: 107, Mismatches: 37, Indels: 8
0.70 0.24 0.05
Matches are distributed among these distances:
31 5 0.05
32 99 0.93
33 3 0.03
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (32 bp):
GCTACTGATGGCTTTGTGTCGATCATATCACC
Found at i:1915648 original size:96 final size:96
Alignment explanation
Indices: 1915478--1915654 Score: 219
Period size: 96 Copynumber: 1.8 Consensus size: 96
1915468 TGCTGCGATG
** * * * **
1915478 CTACTGATGGCTTTGTGCCGATCATATTACCGTTACCAATGTTTGTGTGTCGATCATTTCCCTTT
1 CTACTGATGGCTTTGTGCCGATCATATTACCGTTACCAATGACTGTGTGCCGATCATATCACTGC
1915543 TACTAATGGCTGTGTGCCGATCATATCACTA
66 TACTAATGGCTGTGTGCCGATCATATCACTA
* * *** *
1915574 CTACTGATGGCTTTGTGTCGATCATGTTACCGTTATTGATGACTGTGTGCCGGTCATATCACTGC
1 CTACTGATGGCTTTGTGCCGATCATATTACCGTTACCAATGACTGTGTGCCGATCATATCACTGC
* *
1915639 TACTGATGGCTTTGTG
66 TACTAATGGCTGTGTG
1915655 TCAATCCCAT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
96 66 1.00
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.38
Consensus pattern (96 bp):
CTACTGATGGCTTTGTGCCGATCATATTACCGTTACCAATGACTGTGTGCCGATCATATCACTGC
TACTAATGGCTGTGTGCCGATCATATCACTA
Found at i:1915709 original size:22 final size:22
Alignment explanation
Indices: 1915673--1915720 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1915663 ATTACTGTAC
* *
1915673 TTATAGCTTGCAGCTATTATGT
1 TTATAGCTTACAGCTATCATGT
* *
1915695 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTACAGCTATCATGT
1915717 TTAT
1 TTAT
1915721 GGCTCTTAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.48
Consensus pattern (22 bp):
TTATAGCTTACAGCTATCATGT
Found at i:1915943 original size:28 final size:28
Alignment explanation
Indices: 1915899--1915952 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
1915889 CATAGTGATA
*
1915899 CTGTATCGGGCTTAGGCCCACACTGTTT
1 CTGTATCGGGCTAAGGCCCACACTGTTT
*
1915927 CTGTATTGGGCTAAGGCCCACACTGT
1 CTGTATCGGGCTAAGGCCCACACTGT
1915953 ACTGTTACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.30
Consensus pattern (28 bp):
CTGTATCGGGCTAAGGCCCACACTGTTT
Found at i:1924465 original size:11 final size:11
Alignment explanation
Indices: 1924449--1924507 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
1924439 TAGTGATATA
1924449 GTGGTGCTATG
1 GTGGTGCTATG
* *
1924460 GTGGTGTTATA
1 GTGGTGCTATG
* *
1924471 GTGGTACTAGG
1 GTGGTGCTATG
* *
1924482 GTGGTGGTATA
1 GTGGTGCTATG
*
1924493 GTGGTGTTATG
1 GTGGTGCTATG
1924504 GTGG
1 GTGG
1924508 AGAAGTGGTG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.14, C:0.03, G:0.46, T:0.37
Consensus pattern (11 bp):
GTGGTGCTATG
Found at i:1924473 original size:22 final size:22
Alignment explanation
Indices: 1924445--1924507 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
1924435 AGGGTAGTGA
*
1924445 TATAGTGGTGCTATGGTGGTGT
1 TATAGTGGTGCTATGGTGGTGG
* *
1924467 TATAGTGGTACTAGGGTGGTGG
1 TATAGTGGTGCTATGGTGGTGG
*
1924489 TATAGTGGTGTTATGGTGG
1 TATAGTGGTGCTATGGTGG
1924508 AGAAGTGGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.16, C:0.03, G:0.43, T:0.38
Consensus pattern (22 bp):
TATAGTGGTGCTATGGTGGTGG
Found at i:1927369 original size:43 final size:43
Alignment explanation
Indices: 1927308--1927479 Score: 199
Period size: 43 Copynumber: 4.0 Consensus size: 43
1927298 TTTTGTGAAA
* * *
1927308 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTGTTATCAC
1 AAACGTCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
*
1927351 AAACGTCACTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGTCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * * *
1927394 AAATGCCGCTAAATAGCATGACCTTTAGCGGCACTTTTTTTCAC
1 AAACGTCGCTAAAGAACATGACCTTTAGCGGCGC-TTTTATCAC
*
1927438 AAAC-TCTGCTAAA-AACATGA--TTTAGTGGCGCTTTTATCAC
1 AAACGTC-GCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
1927478 AA
1 AA
1927480 TCGCCGATAA
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 10 0.09
41 9 0.08
43 74 0.67
44 17 0.15
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
AAACGTCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:1927494 original size:86 final size:85
Alignment explanation
Indices: 1927324--1927490 Score: 216
Period size: 84 Copynumber: 2.0 Consensus size: 85
1927314 CGCTATAGAA
*
1927324 CATGACCTTTAGCGGCGCTGTTATCACAAACGTCACTAAAGAACATGACCTTTAGCGGCGCTTTT
1 CATGACCTTTAGCGGCACTGTTATCACAAACGTCACTAAAGAACATGA-CTTTAGCGGCGCTTTT
*
1927389 ATCACAAATGCCGCTAAATAG
65 ATCACAAATGCCGATAAATAG
* * * *
1927410 CATGACCTTTAGCGGCACTTTTTTTCACAAAC-TCTGCTAAA-AACATGA-TTTAGTGGCGCTTT
1 CATGACCTTTAGCGGCAC-TGTTATCACAAACGTC-ACTAAAGAACATGACTTTAGCGGCGCTTT
1927472 TATCAC-AATCGCCGATAAA
64 TATCACAAAT-GCCGATAAA
1927491 AATACTATTC
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
83 3 0.04
84 27 0.38
86 26 0.36
87 16 0.22
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (85 bp):
CATGACCTTTAGCGGCACTGTTATCACAAACGTCACTAAAGAACATGACTTTAGCGGCGCTTTTA
TCACAAATGCCGATAAATAG
Found at i:1933184 original size:9 final size:9
Alignment explanation
Indices: 1933170--1933262 Score: 105
Period size: 9 Copynumber: 10.0 Consensus size: 9
1933160 TAAGTATAAT
*
1933170 TAAGTTACG
1 TAAGTTATG
1933179 TAAGTTATG
1 TAAGTTATG
*
1933188 TGAGTTATG
1 TAAGTTATG
1933197 TAAGTTATG
1 TAAGTTATG
* *
1933206 ATATGATATATA
1 -TAAG-T-TATG
1933218 TAAGTTATG
1 TAAGTTATG
1933227 TAAGTTATG
1 TAAGTTATG
*
1933236 TAAGTTTTG
1 TAAGTTATG
*
1933245 TGAGTTATG
1 TAAGTTATG
1933254 TAAGTTATG
1 TAAGTTATG
1933263 ATATGATATA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
9 59 0.84
10 4 0.06
11 4 0.06
12 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:1933350 original size:9 final size:9
Alignment explanation
Indices: 1933321--1933391 Score: 72
Period size: 9 Copynumber: 7.9 Consensus size: 9
1933311 TAATTCTTTA
1933321 AAGTTATGT
1 AAGTTATGT
*
1933330 AAATTATGT
1 AAGTTATGT
1933339 AAGTTATGT
1 AAGTTATGT
*
1933348 AAGTTTTGCT
1 AAGTTATG-T
* * *
1933358 ATGATATAT
1 AAGTTATGT
*
1933367 -ATTTATGT
1 AAGTTATGT
1933375 AAGTTATGT
1 AAGTTATGT
1933384 AAGTTATG
1 AAGTTATG
1933392 ATATATATTT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
8 4 0.08
9 39 0.81
10 5 0.10
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
AAGTTATGT
Found at i:1934810 original size:16 final size:14
Alignment explanation
Indices: 1934773--1934803 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1934763 AATTTATATG
1934773 TTTATAAATCCATT
1 TTTATAAATCCATT
1934787 TTTATAAATCCATT
1 TTTATAAATCCATT
1934801 TTT
1 TTT
1934804 TCCTAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATAAATCCATT
Found at i:1935147 original size:18 final size:18
Alignment explanation
Indices: 1935124--1935165 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1935114 TGGTCGGGTC
*
1935124 GAGGAGCACGATGCAGCA
1 GAGGAGCACGATGCAACA
**
1935142 GAGGAGGGCGATGCAACA
1 GAGGAGCACGATGCAACA
1935160 GAGGAG
1 GAGGAG
1935166 GGCAATGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.45, T:0.05
Consensus pattern (18 bp):
GAGGAGCACGATGCAACA
Found at i:1935166 original size:18 final size:18
Alignment explanation
Indices: 1935132--1935177 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1935122 TCGAGGAGCA
*
1935132 CGATGCAGCAGAGGAGGG
1 CGATGCAACAGAGGAGGG
1935150 CGATGCAACAGAGGAGGG
1 CGATGCAACAGAGGAGGG
*
1935168 CAATGCAACA
1 CGATGCAACA
1935178 TGTGGGTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.39, T:0.07
Consensus pattern (18 bp):
CGATGCAACAGAGGAGGG
Found at i:1935730 original size:21 final size:21
Alignment explanation
Indices: 1935706--1935772 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1935696 CTCTTAACAC
1935706 TAAATCATAAACCCTAAACCT
1 TAAATCATAAACCCTAAACCT
* * * * *
1935727 TAAACCTTAAACCCCAAATCA
1 TAAATCATAAACCCTAAACCT
* * *
1935748 TAAA-CCTACACCCTAAGCCT
1 TAAATCATAAACCCTAAACCT
1935768 TAAAT
1 TAAAT
1935773 ATATTACAAG
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.22
Consensus pattern (21 bp):
TAAATCATAAACCCTAAACCT
Found at i:1935936 original size:21 final size:21
Alignment explanation
Indices: 1935907--1935946 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1935897 AACCATGAAC
* *
1935907 AATACTAAAACCCTAACTATA
1 AATAATAAAACCCAAACTATA
*
1935928 AATAATAAACCCCAAACTA
1 AATAATAAAACCCAAACTA
1935947 CAAACTCTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (21 bp):
AATAATAAAACCCAAACTATA
Found at i:1935957 original size:28 final size:28
Alignment explanation
Indices: 1935921--1935984 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
1935911 CTAAAACCCT
* * *
1935921 AACTATAAATAATAAACCCCAAACT-ACA
1 AACTCTAAACAATAAACCACAAACTCA-A
* *
1935949 AACTCTAAACCATAAACCATAAACTCAA
1 AACTCTAAACAATAAACCACAAACTCAA
1935977 AACTCTAA
1 AACTCTAA
1935985 TCCCAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.19
Consensus pattern (28 bp):
AACTCTAAACAATAAACCACAAACTCAA
Found at i:1936399 original size:40 final size:40
Alignment explanation
Indices: 1936346--1936434 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
1936336 GAAAACACCG
* * *
1936346 CTAATGCTCGATCTATAT-CGGCGTTTTTTGACAAGCGCCA
1 CTAATGCTCGATCTAT-TGCGGCATTTTTTAAAAAGCGCCA
* *
1936386 CTAATTCTTGATCTATTGCGGCATTTTTTAAAAAGCGCCA
1 CTAATGCTCGATCTATTGCGGCATTTTTTAAAAAGCGCCA
*
1936426 CTAAAGCTC
1 CTAATGCTC
1936435 AACAACAAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (40 bp):
CTAATGCTCGATCTATTGCGGCATTTTTTAAAAAGCGCCA
Found at i:1936402 original size:154 final size:150
Alignment explanation
Indices: 1936121--1936708 Score: 453
Period size: 155 Copynumber: 3.8 Consensus size: 150
1936111 TTTTTTGAAA
* ** * * ****
1936121 ATGCCACAAAAGCTCAACAACAAACAACGTCAATTT-CTCAACCTTTTTACGGAGTTTTGTTAAA
1 ATGCCACTAAAGCTCAACAACAAATGACGTCATTTTGCTCAA-CTTTTTACGGCGTTTCCAGAAA
** * * * * * *
1936185 AGCGTCGCTAATGCTCGATCTATAGCGACATTTTTCAACAAGCACCGCTAATTCTCGATCTATTG
65 AGCACCGCTAATGCTCGATCTATAGCGGCGTTTTTGAA-AAGCACCACTAATGCTTGATCTATTG
1936250 CGGCATTTCTTAAAAAAATGTCGCTT
129 CGGCATTT-TT-AAAAAATG-CGC-T
*
1936276 ATGCCACTAAAGCTCAAAAACAAATGACGTCATTTTGCTCAACTTTTTACGGCGTTTCCAGAAAA
1 ATGCCACTAAAGCTCAACAACAAATGACGTCATTTTGCTCAACTTTTTACGGCGTTTCCAGAAAA
* * * *
1936341 -CACCGCTAATGCTCGATCTATATCGGCGTTTTTTGACAAGCGCCACTAATTCTTGATCTATTGC
66 GCACCGCTAATGCTCGATCTATAGCGGCG-TTTTTGAAAAGCACCACTAATGCTTGATCTATTGC
*
1936405 GGCATTTTTTAAAAA---GC-
130 GGCATTTTTAAAAAATGCGCT
* * *
1936422 --GCCACTAAAGCTCAACAACAAAGTG-CAGCTAACGCTATTTTGCTCAAAATTTTTGCGGCATT
1 ATGCCACTAAAGCTCAACAACAAA-TGAC-G-T----C-ATTTTGCTC-AACTTTTTACGGC-GT
* * * * * *
1936484 TTCCA-AAAAGCGCAGCTAATGCTCGATCTATAGAGGCGTTTTTCAAATAGCATCGCTAATGCTT
56 TTCCAGAAAAGCACCGCTAATGCTCGATCTATAGCGGCGTTTTTGAAA-AGCACCACTAATGCTT
* * * *
1936548 GATCTATTGCTGCGTTTTTTAAAAAGTGCCACT
120 GATCTATTGCGGC-ATTTTTAAAAAATG-CGCT
* * * * * *
1936581 AACGCCACTAAAGCTCAACAACAAATGACGT-GTTTTGCTTAACTTTTTTTGCGGTGTTT-TACG
1 -ATGCCACTAAAGCTCAACAACAAATGACGTCATTTTGCTCAAC--TTTTTACGGCGTTTCCA-G
* * * * *
1936644 AAAAGCACCGGTAATGCTTGGTCTATAACGGCGTTTTTGAAAAGCGCCACTAATGCTTGATCTAT
62 AAAAGCACCGCTAATGCTCGATCTATAGCGGCGTTTTTGAAAAGCACCACTAATGCTTGATCTAT
1936709 AGCGACGTTT
Statistics
Matches: 348, Mismatches: 57, Indels: 57
0.75 0.12 0.12
Matches are distributed among these distances:
144 22 0.06
145 3 0.01
146 1 0.00
148 2 0.01
150 1 0.00
151 9 0.03
152 27 0.08
153 59 0.17
154 93 0.27
155 98 0.28
156 5 0.01
158 1 0.00
160 1 0.00
161 3 0.01
162 23 0.07
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (150 bp):
ATGCCACTAAAGCTCAACAACAAATGACGTCATTTTGCTCAACTTTTTACGGCGTTTCCAGAAAA
GCACCGCTAATGCTCGATCTATAGCGGCGTTTTTGAAAAGCACCACTAATGCTTGATCTATTGCG
GCATTTTTAAAAAATGCGCT
Found at i:1936543 original size:153 final size:143
Alignment explanation
Indices: 1936123--1936582 Score: 370
Period size: 153 Copynumber: 3.1 Consensus size: 143
1936113 TTTTGAAAAT
* * ** * * * ****
1936123 GCCACAAAAGCTCAACAACAAACAACGTCAATTT-CTCAACCTTTTTACGGAGTTTTGTTAAAAG
1 GCCACTAAAGCTCAAAAACAAATGACGTCATTTTGCTCAA-ATTTTTACGGCGTTTCCAGAAAAG
* * *
1936187 CGTCGCTAATGCTCGATCTATAGCGACATTTTTCAACAAGCACCGCTAATTCTCGATCTATTGCG
65 CG-CGCTAATGCTCGATCTATAGCGGCGTTTTTCAA-AAGCACCGCTAATTCTTGATCTATTGCG
*
1936252 GCATTTCTTAAAAAAATGTCGC
128 GCATTT-TT-TAAAAA----GC
*
1936274 TTATGCCACTAAAGCTCAAAAACAAATGACGTCATTTTGCTCAACTTTTTACGGCGTTTCCAGAA
1 ----GCCACTAAAGCTCAAAAACAAATGACGTCATTTTGCTCAAATTTTTACGGCGTTTCCAGAA
* * * * * *
1936339 AA-CACCGCTAATGCTCGATCTATATCGGCGTTTTTTGACAAGCGCCACTAATTCTTGATCTATT
62 AAGC-GCGCTAATGCTCGATCTATAGCGGCG-TTTTTCAAAAGCACCGCTAATTCTTGATCTATT
1936403 GCGGCATTTTTTAAAAAGC
125 GCGGCATTTTTTAAAAAGC
* * *
1936422 GCCACTAAAGCTCAACAACAAAGTG-CAGCTAACGCTATTTTGCTCAAAATTTTTGCGGCATTTT
1 GCCACTAAAGCTCAAAAACAAA-TGAC-G-T----C-ATTTTGCTC-AAATTTTTACGGC-GTTT
* * *
1936486 CCA-AAAAGCGCAGCTAATGCTCGATCTATAGAGGCGTTTTTCAAATAGCATCGCTAATGCTTGA
56 CCAGAAAAGCGC-GCTAATGCTCGATCTATAGCGGCGTTTTTCAAA-AGCACCGCTAATTCTTGA
* * *
1936550 TCTATTGCTGCGTTTTTTAAAAAGT
119 TCTATTGCGGCATTTTTTAAAAAGC
1936575 GCCACTAA
1 GCCACTAA
1936583 CGCCACTAAA
Statistics
Matches: 253, Mismatches: 36, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
144 22 0.09
145 3 0.01
146 1 0.00
148 2 0.01
150 1 0.00
151 9 0.04
152 28 0.11
153 75 0.30
154 54 0.21
155 53 0.21
156 5 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (143 bp):
GCCACTAAAGCTCAAAAACAAATGACGTCATTTTGCTCAAATTTTTACGGCGTTTCCAGAAAAGC
GCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAGCACCGCTAATTCTTGATCTATTGCGGCA
TTTTTTAAAAAGC
Found at i:1936680 original size:40 final size:39
Alignment explanation
Indices: 1936631--1936759 Score: 134
Period size: 39 Copynumber: 3.3 Consensus size: 39
1936621 AACTTTTTTT
* * *
1936631 GCGGTGTTTTACGAAAAGCACCGGTAATGCTTGGTCTATA
1 GCGGCGTTTT-CGAAAAGCACCGCTAATGCTTGATCTATA
* * * *
1936671 ACGGCGTTTTTGAAAAGCGCCACTAATGCTTGATCTATA
1 GCGGCGTTTTCGAAAAGCACCGCTAATGCTTGATCTATA
* *
1936710 GCGACGTTTTTC-AAAACGCACCGCTAATGCTCGATCTATA
1 GCGGCG-TTTTCGAAAA-GCACCGCTAATGCTTGATCTATA
*
1936750 GCGGCATTTT
1 GCGGCGTTTT
1936760 TCAAAAAGTG
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
39 36 0.50
40 36 0.50
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (39 bp):
GCGGCGTTTTCGAAAAGCACCGCTAATGCTTGATCTATA
Found at i:1936686 original size:39 final size:39
Alignment explanation
Indices: 1936644--1936765 Score: 154
Period size: 39 Copynumber: 3.1 Consensus size: 39
1936634 GTGTTTTACG
* * * *
1936644 AAAAGCACCGGTAATGCTTGGTCTATAACGGCGTTTTTG
1 AAAAGCACCGCTAATGCTTGATCTATAGCGGCGTTTTTC
* * *
1936683 AAAAGCGCCACTAATGCTTGATCTATAGCGACGTTTTTC
1 AAAAGCACCGCTAATGCTTGATCTATAGCGGCGTTTTTC
* *
1936722 AAAACGCACCGCTAATGCTCGATCTATAGCGGCATTTTTC
1 AAAA-GCACCGCTAATGCTTGATCTATAGCGGCGTTTTTC
1936762 AAAA
1 AAAA
1936766 AGTGCCACTA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 36 0.51
40 34 0.49
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (39 bp):
AAAAGCACCGCTAATGCTTGATCTATAGCGGCGTTTTTC
Found at i:1936798 original size:80 final size:78
Alignment explanation
Indices: 1936644--1936800 Score: 197
Period size: 80 Copynumber: 2.0 Consensus size: 78
1936634 GTGTTTTACG
* * * * * * *
1936644 AAAAGCACCGGTAATGCTTGGTCTATAACGGCGTTTTTGAAAAGCGCCACTAATGCTTGATCTAT
1 AAAAGCACCGCTAATGCTCGATCTATAACGGCATTTTTAAAAAGCGCCACTAATGCTCGACCTAT
1936709 AGCGACGTTTTTC
66 AGCGACGTTTTTC
* *
1936722 AAAACGCACCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGTGCCACTAATGCTCGACCT
1 AAAA-GCACCGCTAATGCTCGATCTATAACGGCATTTTT-AAAAAGCGCCACTAATGCTCGACCT
* *
1936787 TTTGCGACGTTTTT
64 ATAGCGACGTTTTT
1936801 GTCATAAATG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
78 4 0.06
79 29 0.44
80 33 0.50
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (78 bp):
AAAAGCACCGCTAATGCTCGATCTATAACGGCATTTTTAAAAAGCGCCACTAATGCTCGACCTAT
AGCGACGTTTTTC
Found at i:1936800 original size:40 final size:40
Alignment explanation
Indices: 1936655--1936800 Score: 150
Period size: 40 Copynumber: 3.7 Consensus size: 40
1936645 AAAGCACCGG
* * * * *
1936655 TAATGCTTGGTCTATAACGGCGTTTTT-GAAAAGCGCCAC
1 TAATGCTCGATCTATAGCGACGTTTTTCAAAAAGCGCCAC
* * * *
1936694 TAATGCTTGATCTATAGCGACGTTTTTCAAAACGCACCGC
1 TAATGCTCGATCTATAGCGACGTTTTTCAAAAAGCGCCAC
* * *
1936734 TAATGCTCGATCTATAGCGGCATTTTTCAAAAAGTGCCAC
1 TAATGCTCGATCTATAGCGACGTTTTTCAAAAAGCGCCAC
* * *
1936774 TAATGCTCGACCTTTTGCGACGTTTTT
1 TAATGCTCGATCTATAGCGACGTTTTT
1936801 GTCATAAATG
Statistics
Matches: 87, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 24 0.28
40 63 0.72
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (40 bp):
TAATGCTCGATCTATAGCGACGTTTTTCAAAAAGCGCCAC
Found at i:1955240 original size:658 final size:663
Alignment explanation
Indices: 1952808--1955484 Score: 4209
Period size: 681 Copynumber: 4.0 Consensus size: 663
1952798 GGTTTGAAAC
* *
1952808 AATTTAATCACACAAATCTAAAAACTATGCAGATAACAAACCTTGGTTAGAGTTGTTATGCAACC
1 AATTTAATCACACAAATCCAAAAACTATGCAGATAACAAAGCTTGGTTAGAGTTGTTATGCAACC
* *
1952873 TACAATTTAATCGTGTTAGGATCTAAATTGAGCATGCACATTTCAATTATGCGTCCATTAGTCGT
66 TACAATTTAATCGTGTTAGGATCTAAATTAAGCATGCACATTTCAATTATGCGTCCATTAGCCGT
* *
1952938 CGGCTGGTTAGGATCGCTCAGCTAATTCAAGTGTATTTCAATCACGTATGAA-GAAATACAGACT
131 CGTCTGGTTAGGATCGCTCAGCTAATTCAGGTGTATTTCAATCACGTATGAATGAAATACAGACT
*
1953002 TGATTTTAATTGAAAACATGATCGATTGAGGCATAAACATTATAAGCATGAATCAAATAAATATT
196 TGATTTTAATTGAAAACATGATCGATTGAGGCACAAACATTATAAGCATGAATCAAATAAATATT
* * *
1953067 ATTTAATCAAAGCAATCATCCTAGCTTAAAAAAAATTAAGCTAACATTGTTATAAACAAGAGCAA
261 ATTTAATCAAAGCAATCATCCTAGCTTAAATAAAATTAAGCTAACATTGTTGTAAACAAGAACAA
* * *
1953132 AGAACACATAGCAAACATCTTTATATTAATTTAAAGAAAATAAATATTAAACCCAATTCAGAGTG
326 AGAACACAAAGCAAACATCTTTATATTAATTTAAAGAAAAGAAAGATTAAACCCAATTCAGAGTG
* * *
1953197 GCTCCCAAGACTCTAACTGACGGGACTCCTTCGTTCCTTTGCTTTGCTCCTTTGCTGATGGTTCT
391 GCCCCCAAGACTCTAACTGACGAGACTCCTTCGTTGCTTTGCTTTGCTCCTTTGCTGATGGTTCT
* *
1953262 CCAAGGTGGCCGACCAAGGGTTCTTTAAGAGGCTTAATTG-CT-A-A-AC-GTGTGGGAATGGAA
456 CCAAGGTGGCCGACCAAGGGTTCTTTAAGAGGCTTAATTGTATAAGATACAGCGTGGGAATGGAA
*
1953322 AAGGCTAAGAGAAAAAGAGAGAATGA----T-ATTGATGCTTGAGGGATGAGAGGGTCTTATTTA
521 AAGGCTAAGAGAAAAAGAGAGAATGATGCTTGATTGACGCTTGAGGGATGAGAGGGTCTTATTTA
* *
1953382 TAGGTGAGGAGAGAGATATATTTTGCTAAAAATAGGAGTTTCCATCTTTTGAAGCATCTTCCATG
586 TAGGTGAGGAGAGAGAGATAGTTTGCTAAAAATAGGAGTTTCCATCTTTTGAAGCATCTTCCATG
* * *
1953447 GGTGGTCGGCCGT
651 GGTGGCCGACCAT
1953460 AATTTAATCACACAAATCCAAAAACTATGCAGATAACAAAGCTTGGTTAGAGTTGTTATGCAACC
1 AATTTAATCACACAAATCCAAAAACTATGCAGATAACAAAGCTTGGTTAGAGTTGTTATGCAACC
* * *
1953525 TACAATTTAATCATGTTAGGATCTAAATTAAGCATGCACAATTCAATTATGCGTCCATTAGCCAT
66 TACAATTTAATCGTGTTAGGATCTAAATTAAGCATGCACATTTCAATTATGCGTCCATTAGCCGT
* *
1953590 CGTCTGCTTAGTATCGCTCAGCTAATTCAGGTGTATTTCAATCACGTATGAATGAAATACAGACT
131 CGTCTGGTTAGGATCGCTCAGCTAATTCAGGTGTATTTCAATCACGTATGAATGAAATACAGACT
* *
1953655 TGATTTTAATTAAAAACATGATCGATTGAGGCAAAAACATTATAAGCATGAATCAAATAAATATT
196 TGATTTTAATTGAAAACATGATCGATTGAGGCACAAACATTATAAGCATGAATCAAATAAATATT
* *
1953720 ATTTAATCAAAGCAATCATCCTGGCTTAAATAAAATTAAGCTAAAATTGTTGTAAACAAGAACAA
261 ATTTAATCAAAGCAATCATCCTAGCTTAAATAAAATTAAGCTAACATTGTTGTAAACAAGAACAA
* *
1953785 AGAACACAAAGAAAACATCTTTATATTAATTTAAAGAAAAGAAAGATTAAACCAAATTCAGAGTG
326 AGAACACAAAGCAAACATCTTTATATTAATTTAAAGAAAAGAAAGATTAAACCCAATTCAGAGTG
* * *
1953850 GCTCTCAAGACTCTAACTGCCGAGACTCCTTCGTTGCTTTGCTTTGCTCCTTTGCTGATGGTTCT
391 GCCCCCAAGACTCTAACTGACGAGACTCCTTCGTTGCTTTGCTTTGCTCCTTTGCTGATGGTTCT
1953915 CCAAGGTGGCCGACCAAGGGTTCTTTAAGAGGCTTAATTGCTAAAATCTCTATGAAAAAATGATA
456 CCAAGGTGGCCGACCAAGGGTTCTTTAAGAGGCTTAATTG----------TAT-----AA-GATA
* * *
1953980 CTAGGCGTGGGAATGGAAAAGGCTAAGAGAAAAAGAGGGAATGATGTTTGATTGATGCTTGAGGG
505 C-A-GCGTGGGAATGGAAAAGGCTAAGAGAAAAAGAGAGAATGATGCTTGATTGACGCTTGAGGG
1954045 ATGAGAGGGTCTTATTTATAGGTGAGGAGAGAGAGATAGTTTGCTAAAAATAGGAGTTTCCATCT
568 ATGAGAGGGTCTTATTTATAGGTGAGGAGAGAGAGATAGTTTGCTAAAAATAGGAGTTTCCATCT
1954110 TTTGAAGCATCTTCCATGGGTGGCCGACCAT
633 TTTGAAGCATCTTCCATGGGTGGCCGACCAT
** *
1954141 AATTTAATCACACAAATGTAAAAACTATGCAGATAACAAAGCTTGGTTGGAGTTGTTATGCAACC
1 AATTTAATCACACAAATCCAAAAACTATGCAGATAACAAAGCTTGGTTAGAGTTGTTATGCAACC
*
1954206 TACAATTTAATCGTGTTAGGATCTAAATTAAGCATGCACATTTCAATTATGCGTCCATTAGCTGT
66 TACAATTTAATCGTGTTAGGATCTAAATTAAGCATGCACATTTCAATTATGCGTCCATTAGCCGT
* * *
1954271 CGTCTGGTTAGGATCGCTCAACTAATTTAGGTGTACTTT-ATTCACGTATGAATGAAATACAGAC
131 CGTCTGGTTAGGATCGCTCAGCTAATTCAGGTGTA-TTTCAATCACGTATGAATGAAATACAGAC
1954335 TTGATTTTAATTGAAAACATGATCGATTGAGGCACAAACATTATAAGCATGAATCAAATAAATAT
195 TTGATTTTAATTGAAAACATGATCGATTGAGGCACAAACATTATAAGCATGAATCAAATAAATAT
* *
1954400 TATTTAATCAAAGCAATCATCCTAGCTTAAATAAAATTAAGCTAACATTGTTGTAAACAATAAAA
260 TATTTAATCAAAGCAATCATCCTAGCTTAAATAAAATTAAGCTAACATTGTTGTAAACAAGAACA
* *
1954465 AAGAACACAAAGCAAATATCTTTATATTAAATTAAAGAAAAGAAAGATTAAACCCAATTCAGAGT
325 AAGAACACAAAGCAAACATCTTTATATTAATTTAAAGAAAAGAAAGATTAAACCCAATTCAGAGT
*
1954530 GGCCCCCAAGACTCTAACTGACGAGACTCCTTCGTTGCTTTGCTTTGCTCCTTTGCTGATGGTTA
390 GGCCCCCAAGACTCTAACTGACGAGACTCCTTCGTTGCTTTGCTTTGCTCCTTTGCTGATGGTTC
* *
1954595 TCCAAGGTGGCCGACCAAGGGTGCTTTAAGAGGCTTAATTG-AT-A-A-AC-GCGTGGGAATAGA
455 TCCAAGGTGGCCGACCAAGGGTTCTTTAAGAGGCTTAATTGTATAAGATACAGCGTGGGAATGGA
* *
1954655 AAAGGCTAAGAGAAAAAGAGAGAATGATGCTTGATTGACACTTGAAGGATGAGAGGGTCTTATTT
520 AAAGGCTAAGAGAAAAAGAGAGAATGATGCTTGATTGACGCTTGAGGGATGAGAGGGTCTTATTT
*
1954720 ATAGGTGAGGAGAGAGAGATAATTTGCTAAAAATAGGAGTTTCCATCTTTTGAAGCATCTTCCAT
585 ATAGGTGAGGAGAGAGAGATAGTTTGCTAAAAATAGGAGTTTCCATCTTTTGAAGCATCTTCCAT
* *
1954785 GGGTGGTCGGCCAT
650 GGGTGGCCGACCAT
* *
1954799 AATTTAATCACACAAATCCGAAAACTATGCAGATAACAAAGCTTGGTTAGAGTTGTCATGCAACC
1 AATTTAATCACACAAATCCAAAAACTATGCAGATAACAAAGCTTGGTTAGAGTTGTTATGCAACC
* *
1954864 TACAATTTAATCGTGTTAGGATCTAAATTAAGCATGCACATTTCAATAATGCATCCATTAGCCGT
66 TACAATTTAATCGTGTTAGGATCTAAATTAAGCATGCACATTTCAATTATGCGTCCATTAGCCGT
* * *
1954929 CATCTGGTTAGGATCGCTCAGCTAATTCAGGTGTATTTCAATCACATATGAATGAAATATAGACT
131 CGTCTGGTTAGGATCGCTCAGCTAATTCAGGTGTATTTCAATCACGTATGAATGAAATACAGACT
*
1954994 TGATTTTAATTGAAAACATGATCGATTGAGGCACAAACATTATAAGAATGAATCAAATAAATATT
196 TGATTTTAATTGAAAACATGATCGATTGAGGCACAAACATTATAAGCATGAATCAAATAAATATT
* *
1955059 ATTAAATCAAAGCAATCATCCTAGCTTAAATAAAATTAAGCTAACATTGTTGTCAACAAGAACAA
261 ATTTAATCAAAGCAATCATCCTAGCTTAAATAAAATTAAGCTAACATTGTTGTAAACAAGAACAA
* * * *
1955124 AGAACACATAGCAAATATCTTTATATTAATTTAGAGAAAAGAAAGATTAAACCCAATTCAAAGTG
326 AGAACACAAAGCAAACATCTTTATATTAATTTAAAGAAAAGAAAGATTAAACCCAATTCAGAGTG
1955189 GCCCCCAAGACTCTAACTGACGAGACTCCTTCGTTGCTTTGCTTTGCTCCTTTGCTGATGGTTCT
391 GCCCCCAAGACTCTAACTGACGAGACTCCTTCGTTGCTTTGCTTTGCTCCTTTGCTGATGGTTCT
1955254 CCAAGGTGGCCGACCAAGGGTTCTTTAAGAGGCTTAATTGTTAAAATCTTTATGAAGAGATGATG
456 CCAAGGTGGCCGACCAAGGGTTCTTTAAGAGGCTTAATTG----------TAT--A-AGAT-A--
*
1955319 CTAGGCGTGGGAATGGAAAAGGCTAAGACAAAAAGAGAGAATGATGCTTGATTGACGCTTGAGGG
505 C-A-GCGTGGGAATGGAAAAGGCTAAGAGAAAAAGAGAGAATGATGCTTGATTGACGCTTGAGGG
1955384 ATGAGAGGGTCTTATTTATAGGTGAGGAGAGAGAGATAGTTTGCTAAAAATAGGAGTTTCCATCT
568 ATGAGAGGGTCTTATTTATAGGTGAGGAGAGAGAGATAGTTTGCTAAAAATAGGAGTTTCCATCT
* *
1955449 TTTGAAGCATCTCCCATGGGTGACCGACCAT
633 TTTGAAGCATCTTCCATGGGTGGCCGACCAT
1955480 AATTT
1 AATTT
1955485 TAGAAAGTTG
Statistics
Matches: 1866, Mismatches: 105, Indels: 79
0.91 0.05 0.04
Matches are distributed among these distances:
652 171 0.09
653 296 0.16
657 3 0.00
658 614 0.33
661 2 0.00
662 1 0.00
664 2 0.00
669 2 0.00
670 3 0.00
672 1 0.00
673 3 0.00
674 1 0.00
676 39 0.02
678 1 0.00
680 1 0.00
681 723 0.39
682 3 0.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (663 bp):
AATTTAATCACACAAATCCAAAAACTATGCAGATAACAAAGCTTGGTTAGAGTTGTTATGCAACC
TACAATTTAATCGTGTTAGGATCTAAATTAAGCATGCACATTTCAATTATGCGTCCATTAGCCGT
CGTCTGGTTAGGATCGCTCAGCTAATTCAGGTGTATTTCAATCACGTATGAATGAAATACAGACT
TGATTTTAATTGAAAACATGATCGATTGAGGCACAAACATTATAAGCATGAATCAAATAAATATT
ATTTAATCAAAGCAATCATCCTAGCTTAAATAAAATTAAGCTAACATTGTTGTAAACAAGAACAA
AGAACACAAAGCAAACATCTTTATATTAATTTAAAGAAAAGAAAGATTAAACCCAATTCAGAGTG
GCCCCCAAGACTCTAACTGACGAGACTCCTTCGTTGCTTTGCTTTGCTCCTTTGCTGATGGTTCT
CCAAGGTGGCCGACCAAGGGTTCTTTAAGAGGCTTAATTGTATAAGATACAGCGTGGGAATGGAA
AAGGCTAAGAGAAAAAGAGAGAATGATGCTTGATTGACGCTTGAGGGATGAGAGGGTCTTATTTA
TAGGTGAGGAGAGAGAGATAGTTTGCTAAAAATAGGAGTTTCCATCTTTTGAAGCATCTTCCATG
GGTGGCCGACCAT
Found at i:1958329 original size:25 final size:25
Alignment explanation
Indices: 1958301--1958354 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
1958291 TGTAGTGGCA
1958301 AGGTGGCGAAACAGGTGTGGCAAGG
1 AGGTGGCGAAACAGGTGTGGCAAGG
** *
1958326 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCGAAACAGGTGTGGCAAGG
1958351 AGGT
1 AGGT
1958355 CAGAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.11, G:0.48, T:0.17
Consensus pattern (25 bp):
AGGTGGCGAAACAGGTGTGGCAAGG
Found at i:1958818 original size:15 final size:14
Alignment explanation
Indices: 1958794--1958823 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1958784 GCCGAATACT
1958794 TCTTTCCTCTCCTC
1 TCTTTCCTCTCCTC
1958808 TCTTCTCCTCTCCTC
1 TCTT-TCCTCTCCTC
1958823 T
1 T
1958824 TTTGCCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (14 bp):
TCTTTCCTCTCCTC
Found at i:1959259 original size:25 final size:25
Alignment explanation
Indices: 1959231--1959284 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
1959221 TGTAGTGGCA
1959231 AGGTGGCGAAACAGGTGTGGCAAGG
1 AGGTGGCGAAACAGGTGTGGCAAGG
** *
1959256 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCGAAACAGGTGTGGCAAGG
1959281 AGGT
1 AGGT
1959285 CAGAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.11, G:0.48, T:0.17
Consensus pattern (25 bp):
AGGTGGCGAAACAGGTGTGGCAAGG
Found at i:1959748 original size:15 final size:14
Alignment explanation
Indices: 1959724--1959753 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1959714 GCCGAATACT
1959724 TCTTTCCTCTCCTC
1 TCTTTCCTCTCCTC
1959738 TCTTCTCCTCTCCTC
1 TCTT-TCCTCTCCTC
1959753 T
1 T
1959754 TTTGCCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (14 bp):
TCTTTCCTCTCCTC
Found at i:1959777 original size:930 final size:930
Alignment explanation
Indices: 1957977--1959836 Score: 3720
Period size: 930 Copynumber: 2.0 Consensus size: 930
1957967 AGAACAACTC
1957977 TAATTTTCAAGCCATCTATTGACGAAGCTCCTACTCTAGAATTGAAACTTGTAACGCCCCGAATT
1 TAATTTTCAAGCCATCTATTGACGAAGCTCCTACTCTAGAATTGAAACTTGTAACGCCCCGAATT
1958042 TGGGCCTAGATGGAAATAGGTCTTGAGTGTGGGATCACATAAAAAATTATGCGTGCAAGAAAATG
66 TGGGCCTAGATGGAAATAGGTCTTGAGTGTGGGATCACATAAAAAATTATGCGTGCAAGAAAATG
1958107 ACATAAATGAATGTTTTCTTCAGTGGTTAAGTGATTTAGGAAGAGTTGGAAGTGTTGGAGAAGTC
131 ACATAAATGAATGTTTTCTTCAGTGGTTAAGTGATTTAGGAAGAGTTGGAAGTGTTGGAGAAGTC
1958172 TTGGGTTCAAACTTGGGCTTTAGGAAAATTTTTGATTTTTGCTCTTAAGTGAATCTTGGCCTTAG
196 TTGGGTTCAAACTTGGGCTTTAGGAAAATTTTTGATTTTTGCTCTTAAGTGAATCTTGGCCTTAG
1958237 CTTGAAGGCTTTATAAATATTTTTGTGAAATCATGACTCAAAAAGAGCTTGTGGTGTAGTGGCAA
261 CTTGAAGGCTTTATAAATATTTTTGTGAAATCATGACTCAAAAAGAGCTTGTGGTGTAGTGGCAA
1958302 GGTGGCGAAACAGGTGTGGCAAGGAGGTGGCGTCACAGGTGTGGTAAGGAGGTCAGAGGTTCAAG
326 GGTGGCGAAACAGGTGTGGCAAGGAGGTGGCGTCACAGGTGTGGTAAGGAGGTCAGAGGTTCAAG
1958367 TCTCATTGCATGCAAATGGGATTATTTATTTTGCTAATGTGGAGGCAAGAGTTGGTGTTGGATTT
391 TCTCATTGCATGCAAATGGGATTATTTATTTTGCTAATGTGGAGGCAAGAGTTGGTGTTGGATTT
1958432 AAACTCTGTGTTGGAGAGTTTTAATTGGTCAAATGAGTGATTTAAGGAGTGGATCATGAAGGATT
456 AAACTCTGTGTTGGAGAGTTTTAATTGGTCAAATGAGTGATTTAAGGAGTGGATCATGAAGGATT
1958497 TCAAGGAGAGGATTTGAGGAGTGATTTTAGGAGAGAATTTGGGAATTTGAATTGGAAGGGGAGTG
521 TCAAGGAGAGGATTTGAGGAGTGATTTTAGGAGAGAATTTGGGAATTTGAATTGGAAGGGGAGTG
1958562 TGTGCCGTTTGGGGGGAATTAAGGTATAGGAAATTCGGCTAGGGGGCTGCTAGTGACGAATAGGT
586 TGTGCCGTTTGGGGGGAATTAAGGTATAGGAAATTCGGCTAGGGGGCTGCTAGTGACGAATAGGT
1958627 CATTAGGCAACTAGGGCTTTCGATTTTGAAGTGTGTTTTTCCTTGATTTCAGTTGGGAATTTCGG
651 CATTAGGCAACTAGGGCTTTCGATTTTGAAGTGTGTTTTTCCTTGATTTCAGTTGGGAATTTCGG
1958692 TCAGTTTCGATATACCTATTTGTGTTTGGTACGTTTTTGCCAAGTTTTCGAGTACATTATCTGCT
716 TCAGTTTCGATATACCTATTTGTGTTTGGTACGTTTTTGCCAAGTTTTCGAGTACATTATCTGCT
1958757 CTATTTTCTTTTGCCTTTTTGGTTTTGGCCGAATACTTCTTTCCTCTCCTCTCTTCTCCTCTCCT
781 CTATTTTCTTTTGCCTTTTTGGTTTTGGCCGAATACTTCTTTCCTCTCCTCTCTTCTCCTCTCCT
1958822 CTTTTGCCGAAATCTTCCTTTCCTTTTTCTCCTTCTTCCCTTCATTATTTTTTTTCTTCTTTAAT
846 CTTTTGCCGAAATCTTCCTTTCCTTTTTCTCCTTCTTCCCTTCATTATTTTTTTTCTTCTTTAAT
1958887 CTTCTTTTTCCAAGCCCCAA
911 CTTCTTTTTCCAAGCCCCAA
1958907 TAATTTTCAAGCCATCTATTGACGAAGCTCCTACTCTAGAATTGAAACTTGTAACGCCCCGAATT
1 TAATTTTCAAGCCATCTATTGACGAAGCTCCTACTCTAGAATTGAAACTTGTAACGCCCCGAATT
1958972 TGGGCCTAGATGGAAATAGGTCTTGAGTGTGGGATCACATAAAAAATTATGCGTGCAAGAAAATG
66 TGGGCCTAGATGGAAATAGGTCTTGAGTGTGGGATCACATAAAAAATTATGCGTGCAAGAAAATG
1959037 ACATAAATGAATGTTTTCTTCAGTGGTTAAGTGATTTAGGAAGAGTTGGAAGTGTTGGAGAAGTC
131 ACATAAATGAATGTTTTCTTCAGTGGTTAAGTGATTTAGGAAGAGTTGGAAGTGTTGGAGAAGTC
1959102 TTGGGTTCAAACTTGGGCTTTAGGAAAATTTTTGATTTTTGCTCTTAAGTGAATCTTGGCCTTAG
196 TTGGGTTCAAACTTGGGCTTTAGGAAAATTTTTGATTTTTGCTCTTAAGTGAATCTTGGCCTTAG
1959167 CTTGAAGGCTTTATAAATATTTTTGTGAAATCATGACTCAAAAAGAGCTTGTGGTGTAGTGGCAA
261 CTTGAAGGCTTTATAAATATTTTTGTGAAATCATGACTCAAAAAGAGCTTGTGGTGTAGTGGCAA
1959232 GGTGGCGAAACAGGTGTGGCAAGGAGGTGGCGTCACAGGTGTGGTAAGGAGGTCAGAGGTTCAAG
326 GGTGGCGAAACAGGTGTGGCAAGGAGGTGGCGTCACAGGTGTGGTAAGGAGGTCAGAGGTTCAAG
1959297 TCTCATTGCATGCAAATGGGATTATTTATTTTGCTAATGTGGAGGCAAGAGTTGGTGTTGGATTT
391 TCTCATTGCATGCAAATGGGATTATTTATTTTGCTAATGTGGAGGCAAGAGTTGGTGTTGGATTT
1959362 AAACTCTGTGTTGGAGAGTTTTAATTGGTCAAATGAGTGATTTAAGGAGTGGATCATGAAGGATT
456 AAACTCTGTGTTGGAGAGTTTTAATTGGTCAAATGAGTGATTTAAGGAGTGGATCATGAAGGATT
1959427 TCAAGGAGAGGATTTGAGGAGTGATTTTAGGAGAGAATTTGGGAATTTGAATTGGAAGGGGAGTG
521 TCAAGGAGAGGATTTGAGGAGTGATTTTAGGAGAGAATTTGGGAATTTGAATTGGAAGGGGAGTG
1959492 TGTGCCGTTTGGGGGGAATTAAGGTATAGGAAATTCGGCTAGGGGGCTGCTAGTGACGAATAGGT
586 TGTGCCGTTTGGGGGGAATTAAGGTATAGGAAATTCGGCTAGGGGGCTGCTAGTGACGAATAGGT
1959557 CATTAGGCAACTAGGGCTTTCGATTTTGAAGTGTGTTTTTCCTTGATTTCAGTTGGGAATTTCGG
651 CATTAGGCAACTAGGGCTTTCGATTTTGAAGTGTGTTTTTCCTTGATTTCAGTTGGGAATTTCGG
1959622 TCAGTTTCGATATACCTATTTGTGTTTGGTACGTTTTTGCCAAGTTTTCGAGTACATTATCTGCT
716 TCAGTTTCGATATACCTATTTGTGTTTGGTACGTTTTTGCCAAGTTTTCGAGTACATTATCTGCT
1959687 CTATTTTCTTTTGCCTTTTTGGTTTTGGCCGAATACTTCTTTCCTCTCCTCTCTTCTCCTCTCCT
781 CTATTTTCTTTTGCCTTTTTGGTTTTGGCCGAATACTTCTTTCCTCTCCTCTCTTCTCCTCTCCT
1959752 CTTTTGCCGAAATCTTCCTTTCCTTTTTCTCCTTCTTCCCTTCATTATTTTTTTTCTTCTTTAAT
846 CTTTTGCCGAAATCTTCCTTTCCTTTTTCTCCTTCTTCCCTTCATTATTTTTTTTCTTCTTTAAT
1959817 CTTCTTTTTCCAAGCCCCAA
911 CTTCTTTTTCCAAGCCCCAA
1959837 CCATTTCTTT
Statistics
Matches: 930, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
930 930 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (930 bp):
TAATTTTCAAGCCATCTATTGACGAAGCTCCTACTCTAGAATTGAAACTTGTAACGCCCCGAATT
TGGGCCTAGATGGAAATAGGTCTTGAGTGTGGGATCACATAAAAAATTATGCGTGCAAGAAAATG
ACATAAATGAATGTTTTCTTCAGTGGTTAAGTGATTTAGGAAGAGTTGGAAGTGTTGGAGAAGTC
TTGGGTTCAAACTTGGGCTTTAGGAAAATTTTTGATTTTTGCTCTTAAGTGAATCTTGGCCTTAG
CTTGAAGGCTTTATAAATATTTTTGTGAAATCATGACTCAAAAAGAGCTTGTGGTGTAGTGGCAA
GGTGGCGAAACAGGTGTGGCAAGGAGGTGGCGTCACAGGTGTGGTAAGGAGGTCAGAGGTTCAAG
TCTCATTGCATGCAAATGGGATTATTTATTTTGCTAATGTGGAGGCAAGAGTTGGTGTTGGATTT
AAACTCTGTGTTGGAGAGTTTTAATTGGTCAAATGAGTGATTTAAGGAGTGGATCATGAAGGATT
TCAAGGAGAGGATTTGAGGAGTGATTTTAGGAGAGAATTTGGGAATTTGAATTGGAAGGGGAGTG
TGTGCCGTTTGGGGGGAATTAAGGTATAGGAAATTCGGCTAGGGGGCTGCTAGTGACGAATAGGT
CATTAGGCAACTAGGGCTTTCGATTTTGAAGTGTGTTTTTCCTTGATTTCAGTTGGGAATTTCGG
TCAGTTTCGATATACCTATTTGTGTTTGGTACGTTTTTGCCAAGTTTTCGAGTACATTATCTGCT
CTATTTTCTTTTGCCTTTTTGGTTTTGGCCGAATACTTCTTTCCTCTCCTCTCTTCTCCTCTCCT
CTTTTGCCGAAATCTTCCTTTCCTTTTTCTCCTTCTTCCCTTCATTATTTTTTTTCTTCTTTAAT
CTTCTTTTTCCAAGCCCCAA
Found at i:1960733 original size:27 final size:27
Alignment explanation
Indices: 1960694--1960885 Score: 190
Period size: 27 Copynumber: 7.1 Consensus size: 27
1960684 AAAGGTCGTA
**
1960694 AAAATTATTGAAATACCCCTGAAGGGT
1 AAAATTACCGAAATACCCCTGAAGGGT
* *
1960721 AAAATTACCGAAATACCCCCGATGGGT
1 AAAATTACCGAAATACCCCTGAAGGGT
* * * *
1960748 AAAATTACCAAAATTCCCCCGAAGGAT
1 AAAATTACCGAAATACCCCTGAAGGGT
* * *
1960775 AAAATTATCGAAATA-CCCTCGATGGCT
1 AAAATTACCGAAATACCCCT-GAAGGGT
* *
1960802 AAAATTACCAAAATACCCTTGAAGGGT
1 AAAATTACCGAAATACCCCTGAAGGGT
** *
1960829 AAAATTACTAAAATACCCCTGATGGGT
1 AAAATTACCGAAATACCCCTGAAGGGT
**
1960856 AAAATTATTGAAATACCCCT-ATAGGGT
1 AAAATTACCGAAATACCCCTGA-AGGGT
1960883 AAA
1 AAA
1960886 CTGACTGTTA
Statistics
Matches: 137, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
26 4 0.03
27 130 0.95
28 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGAAGGGT
Found at i:1960778 original size:54 final size:54
Alignment explanation
Indices: 1960704--1960885 Score: 231
Period size: 54 Copynumber: 3.4 Consensus size: 54
1960694 AAAATTATTG
1960704 AAATACCCCTGAAGGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTACCA
1 AAATACCCCTGAAGGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTACCA
* * * * * *
1960758 AAATTCCCCCGAAGGATAAAATTATCGAAATACCCTCGATGGCTAAAATTACCA
1 AAATACCCCTGAAGGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTACCA
* ** * ***
1960812 AAATACCCTTGAAGGGTAAAATTACTAAAATACCCCTGATGGGTAAAATTATTG
1 AAATACCCCTGAAGGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTACCA
1960866 AAATACCCCT-ATAGGGTAAA
1 AAATACCCCTGA-AGGGTAAA
1960886 CTGACTGTTA
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 106 0.99
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (54 bp):
AAATACCCCTGAAGGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTACCA
Found at i:1960829 original size:81 final size:81
Alignment explanation
Indices: 1960694--1960875 Score: 240
Period size: 81 Copynumber: 2.2 Consensus size: 81
1960684 AAAGGTCGTA
* * *
1960694 AAAATTATTGAAATACCCCTGAAGGGTAAAATTACCGAAATACCCCCGATGGGTAAAATTACCAA
1 AAAATTATTGAAATACCCCTGAAGGCTAAAATTACCAAAATACCCCCGAAGGGTAAAATTACCAA
*
1960759 AATTCCCCCGAAGGAT
66 AATACCCCCGAAGGAT
* * ** *
1960775 AAAATTATCGAAATA-CCCTCGATGGCTAAAATTACCAAAATACCCTTGAAGGGTAAAATTACTA
1 AAAATTATTGAAATACCCCT-GAAGGCTAAAATTACCAAAATACCCCCGAAGGGTAAAATTACCA
* * *
1960839 AAATACCCCTGATGGGT
65 AAATACCCCCGAAGGAT
1960856 AAAATTATTGAAATACCCCT
1 AAAATTATTGAAATACCCCT
1960876 ATAGGGTAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 4 0.05
81 78 0.91
82 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (81 bp):
AAAATTATTGAAATACCCCTGAAGGCTAAAATTACCAAAATACCCCCGAAGGGTAAAATTACCAA
AATACCCCCGAAGGAT
Found at i:1972246 original size:45 final size:45
Alignment explanation
Indices: 1972197--1972368 Score: 211
Period size: 45 Copynumber: 3.8 Consensus size: 45
1972187 ATACTAGAAA
* * **
1972197 CGAGTAAGACTATAGCTGAAAGACGTTATGTCATAAAAATTCTAT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGTCATCACGATTCTAT
* *
1972242 CGAGTAAGACCATAGCTAAAAGACGTTATGTCATCACGATACTATT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGTCATCACGATTCTA-T
** * * *
1972288 TAAGT-AGACCATAGGTGAAAGATGTTATGGCATCACGATTCTAT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGTCATCACGATTCTAT
* *
1972332 CGAGTAAGACCATAGCTGAAAGACGCTATGGCATCAC
1 CGAGTAAGACCATAGCTGAAAGACGTTATGTCATCAC
1972369 AAATCAAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
44 4 0.04
45 99 0.93
46 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (45 bp):
CGAGTAAGACCATAGCTGAAAGACGTTATGTCATCACGATTCTAT
Found at i:1972315 original size:90 final size:90
Alignment explanation
Indices: 1972203--1972368 Score: 242
Period size: 90 Copynumber: 1.8 Consensus size: 90
1972193 GAAACGAGTA
* * *
1972203 AGACTATAGCTGAAAGACGTTATGTCATAAAAATTCTATCGAGTAAGACCATAGCTAAAAGACGT
1 AGACCATAGCTGAAAGACGTTATGGCATAAAAATTCTATCGAGTAAGACCATAGCTAAAAGACGC
*
1972268 TATGTCATCACGATACTATTTAAGT
66 TATGGCATCACGATACTATTTAAGT
* * * ** *
1972293 AGACCATAGGTGAAAGATGTTATGGCATCACGATTCTATCGAGTAAGACCATAGCTGAAAGACGC
1 AGACCATAGCTGAAAGACGTTATGGCATAAAAATTCTATCGAGTAAGACCATAGCTAAAAGACGC
1972358 TATGGCATCAC
66 TATGGCATCAC
1972369 AAATCAAATA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 66 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (90 bp):
AGACCATAGCTGAAAGACGTTATGGCATAAAAATTCTATCGAGTAAGACCATAGCTAAAAGACGC
TATGGCATCACGATACTATTTAAGT
Found at i:1972387 original size:90 final size:91
Alignment explanation
Indices: 1972201--1972400 Score: 235
Period size: 90 Copynumber: 2.2 Consensus size: 91
1972191 TAGAAACGAG
* *
1972201 TAAGACTATAGCTGAAAGACGTTATGTCATAAAAATTCTATCGAGTAAGACCATAGCTAAAAGAC
1 TAAGACCATAGCTGAAAGACGTTATGGCATAAAAATTCTATCGAGTAAGACCATAGCTAAAAGAC
* * * ** *
1972266 GTTATGTCATCACGATACTATTTAAG
66 GCTATGGCATCACAATACTAAATAAA
* * * ** *
1972292 T-AGACCATAGGTGAAAGATGTTATGGCATCACGATTCTATCGAGTAAGACCATAGCTGAAAGAC
1 TAAGACCATAGCTGAAAGACGTTATGGCATAAAAATTCTATCGAGTAAGACCATAGCTAAAAGAC
1972356 GCTATGGCATCACAA-A-TCAAATAAA
66 GCTATGGCATCACAATACT-AAATAAA
*
1972381 TAAGACCATAGTTGAAAGAC
1 TAAGACCATAGCTGAAAGAC
1972401 ACTATGGGAA
Statistics
Matches: 91, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
88 1 0.01
89 6 0.07
90 83 0.91
91 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (91 bp):
TAAGACCATAGCTGAAAGACGTTATGGCATAAAAATTCTATCGAGTAAGACCATAGCTAAAAGAC
GCTATGGCATCACAATACTAAATAAA
Found at i:1972407 original size:90 final size:91
Alignment explanation
Indices: 1972235--1972500 Score: 238
Period size: 90 Copynumber: 2.9 Consensus size: 91
1972225 TGTCATAAAA
* * * * ** *
1972235 ATTCTATCGAGTAAGACCATAGCTAAAAGACGTTATGTCATCAC-GATACTATTTAAGT-AGACC
1 ATTCTATCGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACAGAT-CGAAATAAATAAGACC
* *** *
1972298 ATAGGTGAAAGATGTTATGGCATCACG
65 ATAGTTGAAAGACACTATGGCAACACG
*
1972325 ATTCTATCGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACAAATC-AAATAAATAAGACCA
1 ATTCTATCGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACAGATCGAAATAAATAAGACCA
*
1972389 TAGTTGAAAGACACTATGGGAACACG
66 TAGTTGAAAGACACTATGGCAACACG
**** * * * *
1972415 ACGAAAAAT-GAATAAGACCATGGTTGAAAGACACTATGGCATCA-AGA-CGAGAATAAATAAGA
1 A--TTCTATCGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACAGATCGA-AATAAATAAGA
* *
1972477 CCATGGTTGAAAGACACCATGGCA
63 CCATAGTTGAAAGACACTATGGCA
1972501 CTCTCCGATC
Statistics
Matches: 145, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
89 6 0.04
90 72 0.50
91 65 0.45
92 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.21
Consensus pattern (91 bp):
ATTCTATCGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACAGATCGAAATAAATAAGACCA
TAGTTGAAAGACACTATGGCAACACG
Found at i:1972441 original size:46 final size:45
Alignment explanation
Indices: 1972336--1972500 Score: 183
Period size: 45 Copynumber: 3.6 Consensus size: 45
1972326 TTCTATCGAG
* * *
1972336 TAAGACCATAGCTGAAAGACGCTATGGCATCACAA-ATC--AAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCA--ACAAGA-CGAAAATAAA
* * * *
1972381 TAAGACCATAGTTGAAAGACACTATGGGAACACGACGAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACAAGACG-AAAATAAA
* *
1972427 TAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAATAAA
*
1972472 TAAGACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATGGTTGAAAGACACTATGGCA
1972501 CTCTCCGATC
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 60 0.58
46 39 0.38
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.17
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAATAAA
Found at i:1975004 original size:18 final size:16
Alignment explanation
Indices: 1974966--1974996 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1974956 GTTAGGTATA
1974966 CATATATCACCATATC
1 CATATATCACCATATC
1974982 CATATATCA-CATATC
1 CATATATCACCATATC
1974997 ATTCATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (16 bp):
CATATATCACCATATC
Found at i:1984476 original size:28 final size:28
Alignment explanation
Indices: 1984443--1984527 Score: 100
Period size: 30 Copynumber: 3.0 Consensus size: 28
1984433 ATATCAGTAT
* *
1984443 AGTGTGGAACTTAGCCCATTACAGTAAC
1 AGTGTGGACCTTAGCCCAATACAGTAAC
* *
1984471 AGTGTGTGGGCCTTAGCCCAATATAGTAAC
1 A--GTGTGGACCTTAGCCCAATACAGTAAC
1984501 AGTG-GGAGCCTTAGCCCAATACAGTAA
1 AGTGTGGA-CCTTAGCCCAATACAGTAA
1984528 TTAGTGCAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.04
28 22 0.46
30 24 0.50
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (28 bp):
AGTGTGGACCTTAGCCCAATACAGTAAC
Found at i:1984697 original size:27 final size:26
Alignment explanation
Indices: 1984644--1984715 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 26
1984634 ATATCGTAGT
* * *
1984644 AAAGCTGCCAGTAATAGTGACGTAGC
1 AAAGCTGCCAGTAACAGTAACGCAGC
1984670 AAAGCTGCCCAGTAACAGTAACGCAGC
1 AAAGCTG-CCAGTAACAGTAACGCAGC
1984697 AAAGCTGCCAGTAACAGTA
1 AAAGCTGCCAGTAACAGTA
1984716 TATGTGGCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
AAAGCTGCCAGTAACAGTAACGCAGC
Found at i:1984728 original size:27 final size:26
Alignment explanation
Indices: 1984638--1984715 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
1984628 ACACCAATAT
* * *
1984638 CGTAGTAAAGCTGCCAGTAATAGTGA
1 CGTAGCAAAGCTGCCAGTAACAGTAA
1984664 CGTAGCAAAGCTGCCCAGTAACAGTAA
1 CGTAGCAAAGCTG-CCAGTAACAGTAA
*
1984691 CGCAGCAAAGCTGCCAGTAACAGTA
1 CGTAGCAAAGCTGCCAGTAACAGTA
1984716 TATGTGGCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 24 0.51
27 23 0.49
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CGTAGCAAAGCTGCCAGTAACAGTAA
Found at i:1984734 original size:27 final size:26
Alignment explanation
Indices: 1984651--1984736 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
1984641 AGTAAAGCTG
* * *
1984651 CCAGTAATAGTGACGTAGCAAAGCTGC-
1 CCAGTAACAGTAACGCAGCAAAGC--CA
**
1984678 CCAGTAACAGTAACGCAGCAAAGCTG
1 CCAGTAACAGTAACGCAGCAAAGCCA
* **
1984704 CCAGTAACAGTATATGTGGCAAAGCCA
1 CCAGTAACAGTA-ACGCAGCAAAGCCA
1984731 CCAGTA
1 CCAGTA
1984737 CAATATACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
26 12 0.25
27 36 0.75
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGTAACAGTAACGCAGCAAAGCCA
Found at i:1985017 original size:81 final size:81
Alignment explanation
Indices: 1984888--1985183 Score: 362
Period size: 81 Copynumber: 3.7 Consensus size: 81
1984878 AAGGGTATAA
* ** * *
1984888 CAGTCATTTTACCCTATG-GGGTATTTTGGTCATTTTACCCCTCGAGGGTATTTTGGTCATTTTA
1 CAGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTA
*
1984952 CCCTTTGGGGGTATTT
66 CCCTTTAGGGGTATTT
* * * *
1984968 CAGTCATTTTACCTTTTAAGGGTATTTTAGTCATTTTACCCTTCAAGGGTATTTTAGTCATTTTA
1 CAGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTA
1985033 CCCTTTAGGGGTATTT
66 CCCTTTAGGGGTATTT
** * *
1985049 TGGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTA
* * *
1985114 GCCTTCAAGGGTATTT
66 CCCTTTAGGGGTATTT
* * * * * *
1985130 CGAAT-ATTTTACCCTTTGAGGGCATTTCGGTCATTTTATCCTTTGGGGGTATTT
1 C-AGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTT
1985184 CGGTTATTTG
Statistics
Matches: 186, Mismatches: 28, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
80 15 0.08
81 170 0.91
82 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (81 bp):
CAGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTA
CCCTTTAGGGGTATTT
Found at i:1985185 original size:27 final size:27
Alignment explanation
Indices: 1984890--1985192 Score: 315
Period size: 27 Copynumber: 11.3 Consensus size: 27
1984880 GGGTATAACA
* *
1984890 GTCATTTTACCCTATG-GGGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * *
1984916 GTCATTTTACCCCTCGAGGGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
1984943 GTCATTTTACCCTTTGGGGGTATTTCA
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * **
1984970 GTCATTTTACCTTTTAAGGGTATTTTA
1 GTCATTTTACCCTTTGAGGGTATTTCG
** **
1984997 GTCATTTTACCCTTCAAGGGTATTTTA
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
1985024 GTCATTTTACCCTTT-AGGGGTATTTTG
1 GTCATTTTACCCTTTGA-GGGTATTTCG
* *
1985051 GTCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
1985078 GTCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTTGAGGGTATTTCG
* **
1985105 GTCATTTTAGCCTTCAAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
1985132 AAT-ATTTTACCCTTTGAGGGCATTTCG
1 -GTCATTTTACCCTTTGAGGGTATTTCG
* *
1985159 GTCATTTTATCCTTTGGGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
1985186 GTTATTT
1 GTCATTT
1985193 GCCCATGAAT
Statistics
Matches: 240, Mismatches: 32, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
26 15 0.06
27 223 0.93
28 2 0.01
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTTTGAGGGTATTTCG
Found at i:1990696 original size:6 final size:6
Alignment explanation
Indices: 1990685--1990711 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1990675 TCTCAGTGTG
1990685 GTGGTA GTGGTA GTGGTA GTGGTA GTG
1 GTGGTA GTGGTA GTGGTA GTGGTA GTG
1990712 TCTGCAGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (6 bp):
GTGGTA
Found at i:1994904 original size:51 final size:49
Alignment explanation
Indices: 1994742--1994922 Score: 184
Period size: 51 Copynumber: 3.6 Consensus size: 49
1994732 GAAAGTGATG
* *
1994742 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-GTGATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGT-ATA
* ** *** * *
1994791 GGTCGCATGTGTAGTACTATGTATAGGCTACTATACGTACCGGATAGTTTC
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GTATA
* **
1994842 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATGGTAATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GT-ATA
1994894 GTCACATGTGTAGTACTATGTGCAGGCTA
1 GTCACATGTGTAGTACTATGTGCAGGCTA
1994923 GTATGTGAAC
Statistics
Matches: 104, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 36 0.35
51 64 0.62
52 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGTATA
Found at i:1994987 original size:45 final size:45
Alignment explanation
Indices: 1994931--1995021 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
1994921 TAGTATGTGA
* *
1994931 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
1994976 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1995021 A
1 A
1995022 TGGAGTATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Done.